Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/r/r-base/r-base_4.2.0-1_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/r-base-4.2.0-1l3uo6a2s/r-base_4.2.0-1_all.buildinfo Get source package info: r-base=4.2.0-1 Source URL: http://snapshot.notset.fr/mr/package/r-base/4.2.0-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.3 autopoint=0.21-6 autotools-dev=20220109.1 base-files=12.2 base-passwd=3.5.52 bash=5.1-6 bash-completion=1:2.11-6 binutils=2.38-3 binutils-common=2.38-3 binutils-x86-64-linux-gnu=2.38-3 bison=2:3.8.2+dfsg-1 bsdextrautils=2.38-4 bsdutils=1:2.38-4 build-essential=12.9 bzip2=1.0.8-5 ca-certificates=20211016 ca-certificates-java=20190909 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-20 dash=0.5.11+git20210903+057cd650a4ed-8 debconf=1.5.79 debhelper=13.7.1 debianutils=5.7-0.1 default-jdk=2:1.11-72 default-jdk-headless=2:1.11-72 default-jre=2:1.11-72 default-jre-headless=2:1.11-72 dh-autoreconf=20 dh-strip-nondeterminism=1.13.0-1 diffutils=1:3.7-5 dpkg=1.21.7 dpkg-dev=1.21.7 dwz=0.14-1 file=1:5.41-3 findutils=4.9.0-3 fontconfig=2.13.1-4.4 fontconfig-config=2.13.1-4.4 fonts-dejavu-core=2.37-2 fonts-lmodern=2.005-1 g++=4:11.2.0-2 g++-11=11.2.0-20 gcc=4:11.2.0-2 gcc-11=11.2.0-20 gcc-11-base=11.2.0-20 gcc-12-base=12-20220319-1 gettext=0.21-6 gettext-base=0.21-6 gfortran=4:11.2.0-2 gfortran-11=11.2.0-20 gir1.2-freedesktop=1.72.0-1+b1 gir1.2-glib-2.0=1.72.0-1+b1 gir1.2-harfbuzz-0.0=2.7.4-1 gir1.2-pango-1.0=1.50.6+ds-2 grep=3.7-1 groff-base=1.22.4-8 gzip=1.12-1 hostname=3.23 icu-devtools=67.1-7 init-system-helpers=1.62 intltool-debian=0.35.0+20060710.5 java-common=0.72 libacl1=2.3.1-1 libapache-pom-java=18-1 libarchive-zip-perl=1.68-1 libasan6=11.2.0-20 libasound2=1.2.6.1-2+b1 libasound2-data=1.2.6.1-2 libatomic1=12-20220319-1 libattr1=1:2.5.1-1 libaudit-common=1:3.0.7-1 libaudit1=1:3.0.7-1+b1 libavahi-client3=0.8-5 libavahi-common-data=0.8-5 libavahi-common3=0.8-5 libbinutils=2.38-3 libblas-dev=3.10.1-1 libblas3=3.10.1-1 libblkid-dev=2.38-4 libblkid1=2.38-4 libbrotli-dev=1.0.9-2+b3 libbrotli1=1.0.9-2+b3 libbsd0=0.11.6-1 libbz2-1.0=1.0.8-5 libbz2-dev=1.0.8-5 libc-bin=2.33-7 libc-dev-bin=2.33-7 libc6=2.33-7 libc6-dev=2.33-7 libcairo-gobject2=1.16.0-5 libcairo-script-interpreter2=1.16.0-5 libcairo2=1.16.0-5 libcairo2-dev=1.16.0-5 libcap-ng0=0.7.9-2.2+b2 libcap2=1:2.44-1 libcc1-0=12-20220319-1 libcom-err2=1.46.5-2 libcommons-logging-java=1.2-3 libcommons-parent-java=43-1 libcrypt-dev=1:4.4.27-1.1 libcrypt1=1:4.4.27-1.1 libctf-nobfd0=2.38-3 libctf0=2.38-3 libcups2=2.4.1op1-2 libcurl4=7.82.0-2 libcurl4-openssl-dev=7.82.0-2 libdatrie-dev=0.2.13-2 libdatrie1=0.2.13-2 libdb5.3=5.3.28+dfsg1-0.8 libdbus-1-3=1.14.0-1 libdebconfclient0=0.262 libdebhelper-perl=13.7.1 libdeflate-dev=1.10-2 libdeflate0=1.10-2 libdpkg-perl=1.21.7 libdrm-amdgpu1=2.4.110-1 libdrm-common=2.4.110-1 libdrm-nouveau2=2.4.110-1 libdrm-radeon1=2.4.110-1 libdrm2=2.4.110-1 libedit2=3.1-20210910-1 libelf1=0.186-1 libexpat1=2.4.8-1 libexpat1-dev=2.4.8-1 libffi-dev=3.4.2-4 libffi8=3.4.2-4 libfile-stripnondeterminism-perl=1.13.0-1 libfontbox-java=1:1.8.16-2 libfontconfig-dev=2.13.1-4.4 libfontconfig1=2.13.1-4.4 libfontconfig1-dev=2.13.1-4.4 libfontenc1=1:1.1.4-1 libfreetype-dev=2.11.1+dfsg-1 libfreetype6=2.11.1+dfsg-1 libfreetype6-dev=2.11.1+dfsg-1 libfribidi-dev=1.0.8-2.1 libfribidi0=1.0.8-2.1 libgcc-11-dev=11.2.0-20 libgcc-s1=12-20220319-1 libgcrypt20=1.10.1-2 libgdbm-compat4=1.23-1 libgdbm6=1.23-1 libgfortran-11-dev=11.2.0-20 libgfortran5=12-20220319-1 libgif7=5.1.9-2.1 libgirepository-1.0-1=1.72.0-1+b1 libgl1=1.4.0-1 libgl1-mesa-dri=22.0.2-1 libglapi-mesa=22.0.2-1 libglib2.0-0=2.72.1-1 libglib2.0-bin=2.72.1-1 libglib2.0-data=2.72.1-1 libglib2.0-dev=2.72.1-1 libglib2.0-dev-bin=2.72.1-1 libglvnd0=1.4.0-1 libglx-mesa0=22.0.2-1 libglx0=1.4.0-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.4-2 libgomp1=12-20220319-1 libgpg-error0=1.43-3 libgraphite2-3=1.3.14-1 libgraphite2-dev=1.3.14-1 libgssapi-krb5-2=1.19.2-2+b1 libharfbuzz-dev=2.7.4-1 libharfbuzz-gobject0=2.7.4-1 libharfbuzz-icu0=2.7.4-1 libharfbuzz0b=2.7.4-1 libhogweed6=3.7.3-1 libice-dev=2:1.0.10-1 libice6=2:1.0.10-1 libicu-dev=67.1-7 libicu67=67.1-7 libidn2-0=2.3.2-2 libisl23=0.24-2 libitm1=12-20220319-1 libjbig-dev=2.1-3.1+b2 libjbig0=2.1-3.1+b2 libjpeg-dev=1:2.1.2-1 libjpeg62-turbo=1:2.1.2-1 libjpeg62-turbo-dev=1:2.1.2-1 libjs-jquery=3.6.0+dfsg+~3.5.13-1 libk5crypto3=1.19.2-2+b1 libkeyutils1=1.6.1-3 libkpathsea6=2021.20210626.59705-1 libkrb5-3=1.19.2-2+b1 libkrb5support0=1.19.2-2+b1 liblapack-dev=3.10.1-1 liblapack3=3.10.1-1 liblcms2-2=2.12~rc1-2 libldap-2.5-0=2.5.11+dfsg-1 libllvm14=1:14.0.1-1 liblsan0=12-20220319-1 liblz4-1=1.9.3-2 liblzma-dev=5.2.5-2.1 liblzma5=5.2.5-2.1 liblzo2-2=2.10-2 libmagic-mgc=1:5.41-3 libmagic1=1:5.41-3 libmd0=1.0.4-1 libmime-charset-perl=1.012.2-1 libmount-dev=2.38-4 libmount1=2.38-4 libmpc3=1.2.1-2 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncurses-dev=6.3-2 libncurses5-dev=6.3-2 libncurses6=6.3-2 libncursesw6=6.3-2 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnspr4=2:4.33-1 libnss3=2:3.77-1 libp11-kit0=0.24.1-1 libpam-modules=1.4.0-11 libpam-modules-bin=1.4.0-11 libpam-runtime=1.4.0-11 libpam0g=1.4.0-11 libpango-1.0-0=1.50.6+ds-2 libpango1.0-dev=1.50.6+ds-2 libpangocairo-1.0-0=1.50.6+ds-2 libpangoft2-1.0-0=1.50.6+ds-2 libpangoxft-1.0-0=1.50.6+ds-2 libpaper-utils=1.1.28+b1 libpaper1=1.1.28+b1 libpcre16-3=2:8.39-14 libpcre2-16-0=10.39-4 libpcre2-32-0=10.39-4 libpcre2-8-0=10.39-4 libpcre2-dev=10.39-4 libpcre2-posix3=10.39-4 libpcre3=2:8.39-14 libpcre3-dev=2:8.39-14 libpcre32-3=2:8.39-14 libpcrecpp0v5=2:8.39-14 libpcsclite1=1.9.5-3 libpdfbox-java=1:1.8.16-2 libperl5.34=5.34.0-4 libpipeline1=1.5.5-1 libpixman-1-0=0.40.0-1 libpixman-1-dev=0.40.0-1 libpng-dev=1.6.37-3 libpng16-16=1.6.37-3 libpsl5=0.21.0-1.2 libptexenc1=2021.20210626.59705-1 libpthread-stubs0-dev=0.4-1 libpython3-stdlib=3.10.4-1 libpython3.10-minimal=3.10.4-3 libpython3.10-stdlib=3.10.4-3 libquadmath0=12-20220319-1 libreadline-dev=8.1.2-1.2 libreadline8=8.1.2-1.2 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.28+dfsg-4 libsasl2-modules-db=2.1.28+dfsg-4 libseccomp2=2.5.3-2 libselinux1=3.3-1+b2 libselinux1-dev=3.3-1+b2 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libsepol-dev=3.3-1 libsepol2=3.3-1 libsigsegv2=2.14-1 libsm-dev=2:1.2.3-1 libsm6=2:1.2.3-1 libsmartcols1=2.38-4 libsombok3=2.4.0-2+b1 libsqlite3-0=3.38.2-1 libssh2-1=1.10.0-3 libssl1.1=1.1.1n-1 libstdc++-11-dev=11.2.0-20 libstdc++6=12-20220319-1 libsub-override-perl=0.09-2 libsynctex2=2021.20210626.59705-1 libsystemd0=250.4-1 libtasn1-6=4.18.0-4 libtcl8.6=8.6.12+dfsg-1 libteckit0=2.5.11+ds1-1 libtexlua53=2021.20210626.59705-1 libtexluajit2=2021.20210626.59705-1 libtext-unidecode-perl=1.30-1 libthai-data=0.1.29-1 libthai-dev=0.1.29-1 libthai0=0.1.29-1 libtiff-dev=4.3.0-6 libtiff5=4.3.0-6 libtiff5-dev=4.3.0-6 libtiffxx5=4.3.0-6 libtinfo6=6.3-2 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtk8.6=8.6.12-1 libtool=2.4.7-3 libtsan0=11.2.0-20 libubsan1=12-20220319-1 libuchardet0=0.0.7-1 libudev1=250.4-1 libunicode-linebreak-perl=0.0.20190101-1+b4 libunistring2=1.0-1 libunwind8=1.3.2-2 libuuid1=2.38-4 libvulkan1=1.3.204.1-2 libwebp7=1.2.2-2+b1 libx11-6=2:1.7.5-1 libx11-data=2:1.7.5-1 libx11-dev=2:1.7.5-1 libx11-xcb1=2:1.7.5-1 libxau-dev=1:1.0.9-1 libxau6=1:1.0.9-1 libxaw7=2:1.0.14-1 libxcb-dri2-0=1.14-3 libxcb-dri3-0=1.14-3 libxcb-glx0=1.14-3 libxcb-present0=1.14-3 libxcb-render0=1.14-3 libxcb-render0-dev=1.14-3 libxcb-shm0=1.14-3 libxcb-shm0-dev=1.14-3 libxcb-sync1=1.14-3 libxcb-xfixes0=1.14-3 libxcb1=1.14-3 libxcb1-dev=1.14-3 libxdmcp-dev=1:1.1.2-3 libxdmcp6=1:1.1.2-3 libxext-dev=2:1.3.4-1 libxext6=2:1.3.4-1 libxfixes3=1:6.0.0-1 libxfont2=1:2.0.5-1 libxft-dev=2.3.4-1 libxft2=2.3.4-1 libxi6=2:1.8-1 libxkbfile1=1:1.1.0-1 libxml-libxml-perl=2.0207+dfsg+really+2.0134-1 libxml-namespacesupport-perl=1.12-1.1 libxml-sax-base-perl=1.09-1.1 libxml-sax-perl=1.02+dfsg-3 libxml2=2.9.13+dfsg-1 libxmu6=2:1.1.3-3 libxmuu1=2:1.1.3-3 libxpm4=1:3.5.12-1 libxrandr2=2:1.5.2-1 libxrender-dev=1:0.9.10-1 libxrender1=1:0.9.10-1 libxshmfence1=1.3-1 libxss-dev=1:1.2.3-1 libxss1=1:1.2.3-1 libxt-dev=1:1.2.1-1 libxt6=1:1.2.1-1 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libz3-4=4.8.12-1+b1 libzstd1=1.5.2+dfsg-1 libzzip-0-13=0.13.72+dfsg.1-1.1 linux-libc-dev=5.17.3-1 lmodern=2.005-1 login=1:4.11.1+dfsg1-2 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.10.2-1 mawk=1.3.4.20200120-3+b1 media-types=7.1.0 mpack=1.6-18 ncurses-base=6.3-2 ncurses-bin=6.3-2 openjdk-11-jdk=11.0.14.1+1-1 openjdk-11-jdk-headless=11.0.14.1+1-1 openjdk-11-jre=11.0.14.1+1-1 openjdk-11-jre-headless=11.0.14.1+1-1 openssl=1.1.1n-1 pango1.0-tools=1.50.6+ds-2 patch=2.7.6-7 perl=5.34.0-4 perl-base=5.34.0-4 perl-modules-5.34=5.34.0-4 pkg-config=0.29.2-1 po-debconf=1.0.21+nmu1 preview-latex-style=12.2-1 python3=3.10.4-1 python3-distutils=3.9.12-1 python3-lib2to3=3.9.12-1 python3-minimal=3.10.4-1 python3.10=3.10.4-3 python3.10-minimal=3.10.4-3 readline-common=8.1.2-1.2 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.03-1 t1utils=1.41-4 tar=1.34+dfsg-1 tcl8.6=8.6.12+dfsg-1 tcl8.6-dev=8.6.12+dfsg-1 tex-common=6.17 texinfo=6.8-4+b1 texlive-base=2021.20220204-1 texlive-binaries=2021.20210626.59705-1 texlive-extra-utils=2021.20220204-1 texlive-fonts-extra=2021.20220204-1 texlive-fonts-recommended=2021.20220204-1 texlive-latex-base=2021.20220204-1 texlive-latex-extra=2021.20220204-1 texlive-latex-recommended=2021.20220204-1 texlive-luatex=2021.20220204-1 texlive-pictures=2021.20220204-1 texlive-plain-generic=2021.20220204-1 tk8.6=8.6.12-1 tk8.6-dev=8.6.12-1 tzdata=2022a-1 ucf=3.0043 util-linux=2.38-4 util-linux-extra=2.38-4 uuid-dev=2.38-4 x11-common=1:7.7+23 x11-xkb-utils=7.7+6 x11proto-core-dev=2022.1-1 x11proto-dev=2022.1-1 xauth=1:1.1.1-1 xdg-utils=1.1.3-4.1 xfonts-base=1:1.0.5 xfonts-encodings=1:1.0.4-2.1 xfonts-utils=1:7.7+6 xkb-data=2.35.1-1 xorg-sgml-doctools=1:1.11-1.1 xserver-common=2:21.1.3-2 xtrans-dev=1.4.0-1 xvfb=2:21.1.3-2+b1 xz-utils=5.2.5-2.1 zlib1g=1:1.2.11.dfsg-4 zlib1g-dev=1:1.2.11.dfsg-4 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220422T145207Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20220422T145207Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220429T153758Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220421T205851Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d r-base=4.2.0-1 && mkdir -p /build/r-base-RaPyev && dpkg-source --no-check -x /*.dsc /build/r-base-RaPyev/r-base-4.2.0 && chown -R builduser:builduser /build/r-base-RaPyev" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-base-RaPyev/r-base-4.2.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1650628161" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/r-base-RaPyev /tmp/r-base-4.2.0-1l3uo6a2s bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20220421T205851Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.3by6jHV_m0 as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.3by6jHV_m0 Reading package lists... Building dependency tree... util-linux is already the newest version (2.38-4). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 135 kB of archives. After this operation, 406 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20220421T205851Z unstable/main amd64 libfakeroot amd64 1.28-1 [48.2 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220421T205851Z unstable/main amd64 fakeroot amd64 1.28-1 [87.2 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 135 kB in 0s (1041 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4703 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.28-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.28-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.28-1_amd64.deb ... Unpacking fakeroot (1.28-1) ... Setting up libfakeroot:amd64 (1.28-1) ... Setting up fakeroot (1.28-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.33-7) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20220422T145207Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20220422T145207Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220429T153758Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20220421T205851Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.3by6jHV_m0 Get:1 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable InRelease [165 kB] Get:2 http://snapshot.notset.fr/archive/debian/20220429T153758Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20220421T205851Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main Sources [12.9 MB] Get:5 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main amd64 Packages [12.4 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20220429T153758Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20220429T153758Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20220429T153758Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20220429T153758Z unstable/main amd64 Packages [12.4 MB] Fetched 38.0 MB in 31s (1217 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.3by6jHV_m0 I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d r-base=4.2.0-1 && mkdir -p /build/r-base-RaPyev && dpkg-source --no-check -x /*.dsc /build/r-base-RaPyev/r-base-4.2.0 && chown -R builduser:builduser /build/r-base-RaPyev"' exec /tmp/mmdebstrap.3by6jHV_m0 Reading package lists... NOTICE: 'r-base' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/edd/r-base.git Please use: git clone https://salsa.debian.org/edd/r-base.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 37.7 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main r-base 4.2.0-1 (dsc) [2952 B] Get:2 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main r-base 4.2.0-1 (tar) [37.6 MB] Get:3 http://snapshot.notset.fr/archive/debian/20220422T145207Z unstable/main r-base 4.2.0-1 (diff) [98.1 kB] Fetched 37.7 MB in 29s (1288 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'r-base_4.2.0-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting r-base in /build/r-base-RaPyev/r-base-4.2.0 dpkg-source: info: unpacking r-base_4.2.0.orig.tar.gz dpkg-source: info: unpacking r-base_4.2.0-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-base-RaPyev/r-base-4.2.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1650628161" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.3by6jHV_m0 dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 4.2.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dirk Eddelbuettel dpkg-source --before-build . fakeroot debian/rules clean *** clean *** dh_testdir dh_testroot rm -f configure-stamp \ build-stamp build-indep-stamp build-arch-stamp \ make-stamp make-arch-stamp make-indep-stamp \ install-indep-stamp install-arch-stamp \ check-stamp [ ! -f Makefile ] || /usr/bin/make distclean rm -f `find . -name "*~"` rm -rf debian/tmp debian/files debian/files* core debian/substvars rm -f doc/html/function.html doc/html/packages.html rm -f modules/*.so src/unix/Rscript dh_clean debian/rules build-indep *** configure *** #automake #autoconf dh_testdir R_SHELL=/bin/bash \ mkdir_p="/bin/mkdir -p" \ MKDIR_P="/bin/mkdir -p" \ R_TEXI2DVICMD=emulation \ R_PAPERSIZE=letter \ R_BROWSER=xdg-open \ R_BZIPCMD=/bin/bzip2 \ R_GZIPCMD="/bin/gzip -n" \ PAGER=/usr/bin/pager \ PERL=/usr/bin/perl \ JAVA_HOME=/usr/lib/jvm/default-java \ R_UNZIPCMD=/usr/bin/unzip \ R_ZIPCMD=/usr/bin/zip \ R_PRINTCMD=/usr/bin/lpr \ TAR=/bin/tar \ LIBnn=lib \ AWK=/usr/bin/awk \ DD=/bin/dd \ GREP=/bin/grep \ FGREP="/bin/grep -F" \ EGREP="/bin/grep -E" \ SED=/bin/sed \ GETWD="/bin/pwd" \ CC=gcc \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong" \ CPPFLAGS= \ LDFLAGS="-Wl,-z,relro" \ FLIBS= \ rsharedir=/usr/share/R/share \ rincludedir=/usr/share/R/include \ rdocdir=/usr/share/R/doc \ ./configure --prefix=/usr \ --with-cairo \ --with-jpeglib \ --with-readline \ --with-tcltk \ --mandir=/usr/share/man \ --infodir=/usr/share/info \ --datadir=/usr/share/R/share \ --includedir=/usr/share/R/include \ --with-blas \ --with-lapack \ --enable-long-double \ --enable-R-profiling \ --enable-R-shlib \ --enable-memory-profiling \ --without-recommended-packages \ --build x86_64-linux-gnu checking build system type... x86_64-pc-linux-gnu checking host system type... x86_64-pc-linux-gnu loading site script './config.site' loading build-specific script './config.site' checking for pwd... /bin/pwd checking whether builddir is srcdir... yes checking whether ln -s works... yes checking for ar... ar checking for a BSD-compatible install... /usr/bin/install -c checking for sed... /bin/sed checking for which... /usr/bin/which checking for /usr/bin/pager... 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for sys/time.h... yes checking for sys/param.h... yes checking whether it is safe to define __EXTENSIONS__... yes checking whether _XOPEN_SOURCE should be defined... no checking how to run the C preprocessor... gcc -E looking for a modern Fortran compiler checking whether the compiler supports GNU Fortran... yes checking whether gfortran accepts -g... yes checking whether the compiler supports GNU C++... yes checking whether g++ accepts -g... yes checking for g++ option to enable C++11 features... none needed checking whether g++ -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc accepts -fvisibility... yes checking whether g++ accepts -fvisibility... yes checking whether gfortran accepts -fvisibility... yes checking for gcc... gcc checking whether the compiler supports GNU Objective C... no checking whether gcc accepts -g... no checking whether g++ can compile ObjC++... no checking whether can compile ObjC++... no checking for Objective C++ compiler... no working ObjC++ compiler found checking how to print strings... printf checking for a sed that does not truncate output... (cached) /bin/sed checking for fgrep... /bin/grep -F checking for ld used by gcc... /usr/bin/ld checking if the linker (/usr/bin/ld) is GNU ld... yes checking for BSD- or MS-compatible name lister (nm)... /usr/bin/nm -B checking the name lister (/usr/bin/nm -B) interface... BSD nm checking the maximum length of command line arguments... 1572864 checking how to convert x86_64-pc-linux-gnu file names to x86_64-pc-linux-gnu format... func_convert_file_noop checking how to convert x86_64-pc-linux-gnu file names to toolchain format... func_convert_file_noop checking for /usr/bin/ld option to reload object files... -r checking for objdump... objdump checking how to recognize dependent libraries... pass_all checking for dlltool... no checking how to associate runtime and link libraries... printf %s\n checking for archiver @FILE support... @ checking for strip... strip checking for ranlib... ranlib checking for gawk... /usr/bin/awk checking command to parse /usr/bin/nm -B output from gcc object... ok checking for sysroot... no checking for a working dd... /bin/dd checking how to truncate binary pipes... /bin/dd bs=4096 count=1 checking for mt... no checking if : is a manifest tool... no checking for dlfcn.h... yes checking for objdir... .libs checking if gcc supports -fno-rtti -fno-exceptions... no checking for gcc option to produce PIC... -fPIC -DPIC checking if gcc PIC flag -fPIC -DPIC works... yes checking if gcc static flag -static works... yes checking if gcc supports -c -o file.o... yes checking if gcc supports -c -o file.o... (cached) yes checking whether the gcc linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking whether -lc should be explicitly linked in... no checking dynamic linker characteristics... GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking whether stripping libraries is possible... yes checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking how to run the C++ preprocessor... g++ -E checking for ld used by g++... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking for g++ option to produce PIC... -fPIC -DPIC checking if g++ PIC flag -fPIC -DPIC works... yes checking if g++ static flag -static works... yes checking if g++ supports -c -o file.o... yes checking if g++ supports -c -o file.o... (cached) yes checking whether the g++ linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking if libtool supports shared libraries... yes checking whether to build shared libraries... yes checking whether to build static libraries... no checking for gfortran option to produce PIC... -fPIC checking if gfortran PIC flag -fPIC works... yes checking if gfortran static flag -static works... yes checking if gfortran supports -c -o file.o... yes checking if gfortran supports -c -o file.o... (cached) yes checking whether the gfortran linker (/usr/bin/ld -m elf_x86_64) supports shared libraries... yes checking dynamic linker characteristics... (cached) GNU/Linux ld.so checking how to hardcode library paths into programs... immediate checking for cos in -lm... yes checking for sin in -lm... yes checking for dlopen in -ldl... yes checking for readline/history.h... yes checking for readline/readline.h... yes checking for rl_callback_read_char in -lreadline... yes checking for history_truncate_file... yes checking for tilde_expand_word... yes checking whether rl_completion_matches exists and is declared... yes checking whether rl_resize_terminal exists and is declared... yes checking whether rl_sort_completion_matches exists and is declared... yes checking for dirent.h that defines DIR... yes checking for library containing opendir... none required checking for sys/wait.h that is POSIX.1 compatible... yes checking for dlfcn.h... (cached) yes checking for fcntl.h... yes checking for glob.h... yes checking for grp.h... yes checking for pwd.h... yes checking for sched.h... yes checking for strings.h... (cached) yes checking for sys/resource.h... yes checking for sys/select.h... yes checking for sys/socket.h... yes checking for sys/stat.h... (cached) yes checking for sys/time.h... (cached) yes checking for sys/times.h... yes checking for sys/utsname.h... yes checking for unistd.h... (cached) yes checking for utime.h... yes checking for arpa/inet.h... yes checking for elf.h... yes checking for features.h... yes checking for floatingpoint.h... no checking for langinfo.h... yes checking for netdb.h... yes checking for netinet/in.h... yes checking for sys/param.h... (cached) yes checking for stdalign.h... yes checking for errno.h... yes checking for inttypes.h... (cached) yes checking for limits.h... yes checking for locale.h... yes checking for stdarg.h... yes checking for stdbool.h... yes checking for stdint.h... (cached) yes checking for string.h... (cached) yes checking for gcc options needed to detect all undeclared functions... none needed checking whether setjmp.h is POSIX.1 compatible... yes checking whether sigsetjmp is declared... yes checking whether siglongjmp is declared... yes checking for GNU C library with version >= 2... yes checking for uint64_t... yes checking for int64_t... yes checking for int_fast64_t... yes checking for pid_t... yes checking for size_t... yes checking whether SIZE_MAX is declared... yes checking for blkcnt_t... yes checking for type of socket length... socklen_t * checking for stack_t... yes checking for intptr_t... yes checking for uintptr_t... yes checking whether byte ordering is bigendian... no checking for an ANSI C-conforming const... yes checking for inline... inline checking size of int... 4 checking size of long... 8 checking size of long long... 8 checking size of double... 8 checking size of size_t... 8 checking for C stack direction... down checking size of long double... 16 checking whether we can compute C Make dependencies... yes, using $(CC) -MM checking whether gcc supports -c -o FILE.lo... yes checking for gcc option to support OpenMP... -fopenmp checking how to get verbose linking output from gfortran... -v checking for Fortran libraries of gfortran... -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lgfortran -lm -lquadmath checking how to get verbose linking output from gcc... -v checking for C libraries of gcc... -L/usr/lib/gcc/x86_64-linux-gnu/11 -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../x86_64-linux-gnu -L/usr/lib/gcc/x86_64-linux-gnu/11/../../../../lib -L/lib/x86_64-linux-gnu -L/lib/../lib -L/usr/lib/x86_64-linux-gnu -L/usr/lib/../lib -L/usr/lib/gcc/x86_64-linux-gnu/11/../../.. -lgcc_s checking for dummy main to link with Fortran libraries... none checking for Fortran name-mangling scheme... lower case, underscore, no extra underscore checking whether gfortran appends underscores to external names... yes checking whether gfortran appends extra underscores to external names... no checking whether mixed C/Fortran code can be run... yes checking whether gfortran and gcc agree on int and double... yes checking whether gfortran and gcc agree on double complex... yes checking for gfortran option to support OpenMP... -fopenmp checking whether g++ accepts -M for generating dependencies... yes checking whether we can compute ObjC Make dependencies... no checking if need -fno-optimize-sibling-calls for gfortran... yes checking for type of 'hidden' Fortran character lengths... size_t checking for xmkmf... no checking whether g++ supports C++11 features with -std=gnu++11... yes checking whether g++ supports C++14 features with -std=gnu++14... yes checking whether g++ supports C++17 features with -std=gnu++17... yes checking whether g++ supports C++20 features with -std=gnu++20... yes checking for g++ -std=gnu++14 option to support OpenMP... -fopenmp checking for option providing pthread_kill... none required checking whether POSIX threads are supported... yes checking for off_t... yes checking for working alloca.h... yes checking for alloca... yes checking whether alloca is declared... yes checking whether expm1 exists and is declared... yes checking whether hypot exists and is declared... yes checking whether log1p exists and is declared... yes checking whether log1pl exists and is declared... yes checking whether log2 exists and is declared... yes checking whether log10 exists and is declared... yes checking whether nearbyint exists and is declared... yes checking whether nearbyintl exists and is declared... yes checking whether powl exists and is declared... yes checking whether rintl exists and is declared... yes checking whether va_copy exists and is declared... yes checking for isblank... yes checking for sunmath.h... no checking for cospi in -lsunmath... no checking for atanpi... no checking for atan2pi... no checking for cospi... no checking for exp10... yes checking for pown... no checking for sinpi... no checking for tanpi... no checking for __cospi... no checking for __sinpi... no checking for __tanpi... no checking for fseeko... yes checking for ftello... yes checking for matherr... no checking whether fcntl exists and is declared... yes checking whether getgrgid exists and is declared... yes checking whether getpwnam exists and is declared... yes checking whether getpwuid exists and is declared... yes checking whether kill exists and is declared... yes checking whether sigaction exists and is declared... yes checking whether sigaltstack exists and is declared... yes checking whether sigemptyset exists and is declared... yes checking whether fdopen exists and is declared... yes checking whether popen exists and is declared... yes checking whether getline exists and is declared... yes checking whether select exists and is declared... yes checking whether setenv exists and is declared... yes checking whether unsetenv exists and is declared... yes checking whether getrlimit exists and is declared... yes checking whether setrlimit exists and is declared... yes checking whether getrusage exists and is declared... yes checking whether getpriority exists and is declared... yes checking whether chmod exists and is declared... yes checking whether mkfifo exists and is declared... yes checking whether stat exists and is declared... yes checking whether umask exists and is declared... yes checking whether gettimeofday exists and is declared... yes checking whether utimes exists and is declared... yes checking whether times exists and is declared... yes checking whether gmtime_r exists and is declared... yes checking whether localtime_r exists and is declared... yes checking whether nl_langinfo exists and is declared... yes checking whether access exists and is declared... yes checking whether chdir exists and is declared... yes checking whether execv exists and is declared... yes checking whether ftruncate exists and is declared... yes checking whether getcwd exists and is declared... yes checking whether geteuid exists and is declared... yes checking whether getuid exists and is declared... yes checking whether link exists and is declared... yes checking whether readlink exists and is declared... yes checking whether symlink exists and is declared... yes checking whether sysconf exists and is declared... yes checking whether sched_setaffinity exists and is declared... yes checking whether sched_getaffinity exists and is declared... yes checking whether utime exists and is declared... yes checking whether utimensat exists and is declared... yes checking for clock_gettime in -lrt... yes checking whether clock_gettime exists and is declared... yes checking whether timespec_get exists and is declared... yes checking for putenv... yes checking whether putenv is declared... yes checking for vasprintf... yes checking whether vasprintf is declared... yes checking for mempcpy... yes checking for realpath... yes checking whether realpath is declared... yes checking whether glob exists and is declared... yes checking for dladdr... yes checking for dlsym... yes checking whether dladdr is declared... yes checking whether dlsym is declared... yes checking whether RTLD_DEFAULT is declared... yes checking whether RTLD_NEXT is declared... yes checking for thread.h... no checking whether thr_stksegment exists and is declared... no checking for isnan... yes checking whether isfinite is declared... yes checking whether isnan is declared... yes checking whether you have IEEE 754 floating-point arithmetic... yes checking whether putenv("FOO") can unset an environment variable... yes checking whether putenv("FOO=") can unset an environment variable... no checking for nl_langinfo and CODESET... yes checking for mkdtemp... yes checking for strdup... yes checking for strncasecmp... yes checking whether mkdtemp is declared... yes checking whether strdup is declared... yes checking whether strncasecmp is declared... yes checking for library containing connect... none required checking for library containing gethostbyname... none required checking for library containing xdr_string... -ltirpc checking for working calloc... yes checking for working isfinite... yes checking for working log1p... yes checking whether ftell works correctly on files opened for append... yes checking for working sigaction... yes checking whether mktime sets errno... no checking whether mktime works correctly outside 1902-2037... yes checking for complex.h... yes checking for double complex... yes checking whether C99 double complex is supported... yes checking whether cabs exists and is declared... yes checking whether carg exists and is declared... yes checking whether cexp exists and is declared... yes checking whether clog exists and is declared... yes checking whether csqrt exists and is declared... yes checking whether cpow exists and is declared... yes checking whether ccos exists and is declared... yes checking whether csin exists and is declared... yes checking whether ctan exists and is declared... yes checking whether cacos exists and is declared... yes checking whether casin exists and is declared... yes checking whether catan exists and is declared... yes checking whether ccosh exists and is declared... yes checking whether csinh exists and is declared... yes checking whether ctanh exists and is declared... yes checking for working ctanh... yes checking whether 'struct tm' includes tm_zone... yes checking whether 'struct tm' includes tm_gmtoff... yes configure: searching for an external BLAS configure: searching for BLAS in default libraries checking for dgemm_... no configure: searching for OpenBLAS checking for sgemm_ in -lopenblas... no configure: searching for ATLAS checking for ATL_xerbla in -latlas... no configure: searching for PhiPACK checking for dgemm_ in -lblas... yes checking for dgemm_ in -ldgemm... no configure: searching for IBM ESSL checking for dgemm_ in -lblas... (cached) yes checking for dgemm_ in -lessl... no configure: searching for generic BLAS library checking for dgemm_ in -lblas... (cached) yes checking whether double complex BLAS can be used... yes checking whether the BLAS is complete... yes checking for dpstrf_... no checking for dpstrf_ in -llapack... yes checking for iconv.h... yes checking for iconv... yes checking whether iconv accepts "UTF-8", "latin1", "ASCII" and "UCS-*"... yes checking whether iconv accepts "CP1252"... yes checking for iconvlist... no checking for iconv... yes checking for iconv declaration... extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for wchar.h... 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(cached) no checking whether included gettext is requested... no checking for GNU gettext in libc... yes checking whether to use NLS... yes checking where the gettext function comes from... libc Finished configuring src/extra/intl directory checking whether OpenMP SIMD reduction is supported... yes using as R_SHELL for scripts ... /bin/bash configure: creating ./config.status config.status: creating Makeconf config.status: creating Makefile config.status: creating doc/Makefile config.status: creating doc/html/Makefile config.status: creating doc/manual/Makefile config.status: creating etc/Makefile config.status: creating etc/Makeconf config.status: creating etc/Renviron config.status: creating etc/javaconf config.status: creating etc/ldpaths config.status: creating m4/Makefile config.status: creating po/Makefile config.status: creating share/Makefile config.status: creating src/Makefile config.status: creating src/appl/Makefile config.status: creating src/extra/Makefile config.status: creating src/extra/blas/Makefile config.status: creating src/extra/intl/Makefile config.status: creating src/extra/tre/Makefile config.status: creating src/extra/tzone/Makefile config.status: creating src/extra/xdr/Makefile config.status: creating src/include/Makefile config.status: creating src/include/Rmath.h0 config.status: creating src/include/R_ext/Makefile config.status: creating src/library/Recommended/Makefile config.status: creating src/library/Makefile config.status: creating src/library/base/DESCRIPTION config.status: creating src/library/base/Makefile config.status: creating src/library/compiler/DESCRIPTION config.status: creating src/library/compiler/Makefile config.status: creating src/library/datasets/DESCRIPTION config.status: creating src/library/datasets/Makefile config.status: creating src/library/graphics/DESCRIPTION config.status: creating src/library/graphics/Makefile config.status: creating src/library/graphics/src/Makefile config.status: creating src/library/grDevices/DESCRIPTION config.status: creating src/library/grDevices/Makefile config.status: creating src/library/grDevices/src/Makefile config.status: creating src/library/grDevices/src/cairo/Makefile config.status: creating src/library/grid/DESCRIPTION config.status: creating src/library/grid/Makefile config.status: creating src/library/grid/src/Makefile config.status: creating src/library/methods/DESCRIPTION config.status: creating src/library/methods/Makefile config.status: creating src/library/methods/src/Makefile config.status: creating src/library/parallel/DESCRIPTION config.status: creating src/library/parallel/Makefile config.status: creating src/library/parallel/src/Makefile config.status: creating src/library/profile/Makefile config.status: creating src/library/stats/DESCRIPTION config.status: creating src/library/stats/Makefile config.status: creating src/library/stats/src/Makefile config.status: creating src/library/stats4/DESCRIPTION config.status: creating src/library/stats4/Makefile config.status: creating src/library/splines/DESCRIPTION config.status: creating src/library/splines/Makefile config.status: creating src/library/splines/src/Makefile config.status: creating src/library/tcltk/DESCRIPTION config.status: creating src/library/tcltk/Makefile config.status: creating src/library/tcltk/src/Makefile config.status: creating src/library/tools/DESCRIPTION config.status: creating src/library/tools/Makefile config.status: creating src/library/tools/src/Makefile config.status: creating src/library/translations/DESCRIPTION config.status: creating src/library/translations/Makefile config.status: creating src/library/utils/DESCRIPTION config.status: creating src/library/utils/Makefile config.status: creating src/library/utils/src/Makefile config.status: creating src/main/Makefile config.status: creating src/modules/Makefile config.status: creating src/modules/X11/Makefile config.status: creating src/modules/internet/Makefile config.status: creating src/modules/lapack/Makefile config.status: creating src/nmath/Makefile config.status: creating src/nmath/standalone/Makefile config.status: creating src/scripts/Makefile config.status: creating src/scripts/R.sh config.status: creating src/scripts/Rcmd config.status: creating src/scripts/javareconf config.status: creating src/scripts/mkinstalldirs config.status: creating src/scripts/pager config.status: creating src/scripts/rtags config.status: creating src/unix/Makefile config.status: creating tests/Makefile config.status: creating tests/Embedding/Makefile config.status: creating tests/Examples/Makefile config.status: creating tools/Makefile config.status: creating src/include/config.h config.status: executing libtool commands config.status: executing stamp-h commands R is now configured for x86_64-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 Fortran fixed-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong Default C++ compiler: g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++11 compiler: g++ -std=gnu++11 -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++14 compiler: g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++17 compiler: g++ -std=gnu++17 -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 C++20 compiler: g++ -std=gnu++20 -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 Fortran free-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong Obj-C compiler: Interfaces supported: X11, tcltk External libraries: pcre2, readline, BLAS(generic), LAPACK(generic), curl Additional capabilities: PNG, JPEG, TIFF, NLS, cairo, ICU Options enabled: shared R library, R profiling, memory profiling Capabilities skipped: Options not enabled: shared BLAS Recommended packages: no touch configure-stamp *** make-indep *** /usr/bin/make -k docs make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' mkdir -p -- ../../include make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' making regcomp.d from regcomp.c making regerror.d from regerror.c making regexec.d from regexec.c making tre-ast.d from tre-ast.c making tre-compile.d from tre-compile.c making tre-match-approx.d from tre-match-approx.c making tre-match-backtrack.d from tre-match-backtrack.c making tre-match-parallel.d from tre-match-parallel.c making tre-mem.d from tre-mem.c making tre-parse.d from tre-parse.c making tre-stack.d from tre-stack.c making xmalloc.d from xmalloc.c make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regerror.c -o regerror.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c regexec.c -o regexec.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c xmalloc.c -o xmalloc.o ar -cr libtre.a regcomp.o regerror.o regexec.o tre-ast.o tre-compile.o tre-match-approx.o tre-match-backtrack.o tre-match-parallel.o tre-mem.o tre-parse.o tre-stack.o xmalloc.o ranlib libtre.a make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' making integrate.d from integrate.c making interv.d from interv.c making maxcol.d from maxcol.c making optim.d from optim.c making pretty.d from pretty.c making uncmin.d from uncmin.c make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c interv.c -o interv.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c maxcol.c -o maxcol.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pretty.c -o pretty.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c uncmin.c -o uncmin.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dchdc.f -o dchdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dpbfa.f -o dpbfa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dpbsl.f -o dpbsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dpoco.f -o dpoco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dpodi.f -o dpodi.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dpofa.f -o dpofa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dposl.f -o dposl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dqrdc.f -o dqrdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dqrdc2.f -o dqrdc2.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dqrls.f -o dqrls.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dqrsl.f -o dqrsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dqrutl.f -o dqrutl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dsvdc.f -o dsvdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dtrco.f -o dtrco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c dtrsl.f -o dtrsl.o ar -cr libappl.a integrate.o interv.o maxcol.o optim.o pretty.o uncmin.o dchdc.o dpbfa.o dpbsl.o dpoco.o dpodi.o dpofa.o dposl.o dqrdc.o dqrdc2.o dqrls.o dqrsl.o dqrutl.o dsvdc.o dtrco.o dtrsl.o ranlib libappl.a make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mlutils.c -o mlutils.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c d1mach.c -o d1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c i1mach.c -o i1mach.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fmax2.c -o fmax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fmin2.c -o fmin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fprec.c -o fprec.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fround.c -o fround.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ftrunc.c -o ftrunc.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sign.c -o sign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fsign.c -o fsign.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c imax2.c -o imax2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c imin2.c -o imin2.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chebyshev.c -o chebyshev.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c log1p.c -o log1p.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lgammacor.c -o lgammacor.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gammalims.c -o gammalims.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stirlerr.c -o stirlerr.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bd0.c -o bd0.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma.c -o gamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lgamma.c -o lgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c beta.c -o beta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lbeta.c -o lbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c polygamma.c -o polygamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cospi.c -o cospi.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_i.c -o bessel_i.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_j.c -o bessel_j.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_k.c -o bessel_k.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bessel_y.c -o bessel_y.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c choose.c -o choose.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c snorm.c -o snorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sexp.c -o sexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dgamma.c -o dgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pgamma.c -o pgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qgamma.c -o qgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rgamma.c -o rgamma.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dbeta.c -o dbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pbeta.c -o pbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qbeta.c -o qbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbeta.c -o rbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dunif.c -o dunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c punif.c -o punif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qunif.c -o qunif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c runif.c -o runif.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnorm.c -o dnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnorm.c -o pnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnorm.c -o qnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnorm.c -o rnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dlnorm.c -o dlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plnorm.c -o plnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qlnorm.c -o qlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlnorm.c -o rlnorm.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c df.c -o df.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pf.c -o pf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qf.c -o qf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rf.c -o rf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnf.c -o dnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dt.c -o dt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pt.c -o pt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qt.c -o qt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rt.c -o rt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnt.c -o dnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dchisq.c -o dchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pchisq.c -o pchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qchisq.c -o qchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rchisq.c -o rchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnchisq.c -o rnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dbinom.c -o dbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pbinom.c -o pbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qbinom.c -o qbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbinom.c -o rbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rmultinom.c -o rmultinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dcauchy.c -o dcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pcauchy.c -o pcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qcauchy.c -o qcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rcauchy.c -o rcauchy.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dexp.c -o dexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pexp.c -o pexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qexp.c -o qexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rexp.c -o rexp.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dgeom.c -o dgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pgeom.c -o pgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qgeom.c -o qgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rgeom.c -o rgeom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dhyper.c -o dhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c phyper.c -o phyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qhyper.c -o qhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rhyper.c -o rhyper.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbinom.c -o dnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbinom.c -o pnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom.c -o qnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rnbinom.c -o rnbinom.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dpois.c -o dpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ppois.c -o ppois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qpois.c -o qpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rpois.c -o rpois.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dweibull.c -o dweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pweibull.c -o pweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qweibull.c -o qweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rweibull.c -o rweibull.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dlogis.c -o dlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plogis.c -o plogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qlogis.c -o qlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlogis.c -o rlogis.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnchisq.c -o dnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnchisq.c -o pnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnchisq.c -o qnchisq.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dnbeta.c -o dnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnbeta.c -o pnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnbeta.c -o qnbeta.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnf.c -o pnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pnt.c -o pnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnf.c -o qnf.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qnt.c -o qnt.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ptukey.c -o ptukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qtukey.c -o qtukey.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c toms708.c -o toms708.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c wilcox.c -o wilcox.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c signrank.c -o signrank.o ar -cr libnmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o ranlib libnmath.a make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' config.status: creating src/unix/Makefile making Rembedded.d from Rembedded.c making dynload.d from dynload.c making system.d from system.c making sys-unix.d from sys-unix.c making sys-std.d from sys-std.c making X11.d from X11.c make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rembedded.c -o Rembedded.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dynload.c -o dynload.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c system.c -o system.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-unix.c -o sys-unix.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sys-std.c -o sys-std.o gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c X11.c -o X11.o ar -cr libunix.a Rembedded.o dynload.o system.o sys-unix.o sys-std.o X11.o ranlib libunix.a make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/r-base-RaPyev/r-base-4.2.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' config.status: creating src/main/Makefile making CommandLineArgs.d from CommandLineArgs.c making Rdynload.d from Rdynload.c making Renviron.d from Renviron.c making RNG.d from RNG.c making agrep.d from agrep.c making altclasses.d from altclasses.c making altrep.d from altrep.c making apply.d from apply.c making arithmetic.d from arithmetic.c making array.d from array.c making attrib.d from attrib.c making bind.d from bind.c making builtin.d from builtin.c making character.d from character.c making clippath.d from clippath.c making coerce.d from coerce.c making colors.d from colors.c making complex.d from complex.c making connections.d from connections.c making context.d from context.c making cum.d from cum.c making dcf.d from dcf.c making datetime.d from datetime.c making debug.d from debug.c making deparse.d from deparse.c making devices.d from devices.c making dotcode.d from dotcode.c making dounzip.d from dounzip.c making dstruct.d from dstruct.c making duplicate.d from duplicate.c making edit.d from edit.c making engine.d from engine.c making envir.d from envir.c making errors.d from errors.c making eval.d from eval.c making format.d from format.c making gevents.d from gevents.c making gram.d from gram.c making gram-ex.d from gram-ex.c making graphics.d from graphics.c making grep.d from grep.c making identical.d from identical.c making inlined.d from inlined.c making inspect.d from inspect.c making internet.d from internet.c making iosupport.d from iosupport.c making lapack.d from lapack.c making list.d from list.c making localecharset.d from localecharset.c making logic.d from logic.c making main.d from main.c making mapply.d from mapply.c making mask.d from mask.c making match.d from match.c making memory.d from memory.c making names.d from names.c making objects.d from objects.c making options.d from options.c making paste.d from paste.c making patterns.d from patterns.c making platform.d from platform.c making plot.d from plot.c making plot3d.d from plot3d.c making plotmath.d from plotmath.c making print.d from print.c making printarray.d from printarray.c making printvector.d from printvector.c making printutils.d from printutils.c making qsort.d from qsort.c making radixsort.d from radixsort.c making random.d from random.c making raw.d from raw.c making registration.d from registration.c making relop.d from relop.c making rlocale.d from rlocale.c making saveload.d from saveload.c making scan.d from scan.c making seq.d from seq.c making serialize.d from serialize.c making sort.d from sort.c making source.d from source.c making split.d from split.c making sprintf.d from sprintf.c making startup.d from startup.c making subassign.d from subassign.c making subscript.d from subscript.c making subset.d from subset.c making summary.d from summary.c making sysutils.d from sysutils.c making times.d from times.c making unique.d from unique.c making util.d from util.c making version.d from version.c making g_alab_her.d from g_alab_her.c making g_cntrlify.d from g_cntrlify.c making g_fontdb.d from g_fontdb.c making g_her_glyph.d from g_her_glyph.c making Rmain.d from Rmain.c making alloca.d from alloca.c making mkdtemp.d from mkdtemp.c making strdup.d from strdup.c making strncasecmp.d from strncasecmp.c make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c CommandLineArgs.c -o CommandLineArgs.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rdynload.c -o Rdynload.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Renviron.c -o Renviron.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c RNG.c -o RNG.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c agrep.c -o agrep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c altclasses.c -o altclasses.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c altrep.c -o altrep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c apply.c -o apply.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c arithmetic.c -o arithmetic.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c array.c -o array.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c attrib.c -o attrib.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bind.c -o bind.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c builtin.c -o builtin.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c character.c -o character.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c coerce.c -o coerce.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c complex.c -o complex.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c connections.c -o connections.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c context.c -o context.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cum.c -o cum.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dcf.c -o dcf.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c datetime.c -o datetime.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c debug.c -o debug.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c deparse.c -o deparse.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dotcode.c -o dotcode.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dounzip.c -o dounzip.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dstruct.c -o dstruct.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c duplicate.c -o duplicate.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c edit.c -o edit.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c engine.c -o engine.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c envir.c -o envir.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c errors.c -o errors.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c eval.c -o eval.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c format.c -o format.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gevents.c -o gevents.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gram.c -o gram.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gram-ex.c -o gram-ex.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c grep.c -o grep.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c identical.c -o identical.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c inlined.c -o inlined.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c inspect.c -o inspect.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c internet.c -o internet.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c iosupport.c -o iosupport.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lapack.c -o lapack.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c list.c -o list.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c localecharset.c -o localecharset.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c logic.c -o logic.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c main.c -o main.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mapply.c -o mapply.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c match.c -o match.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c memory.c -o memory.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c names.c -o names.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c objects.c -o objects.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c options.c -o options.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c paste.c -o paste.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c platform.c -o platform.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plotmath.c -o plotmath.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c print.c -o print.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printarray.c -o printarray.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printvector.c -o printvector.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c printutils.c -o printutils.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c qsort.c -o qsort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c radixsort.c -o radixsort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c raw.c -o raw.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c registration.c -o registration.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c relop.c -o relop.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rlocale.c -o rlocale.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c saveload.c -o saveload.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c scan.c -o scan.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c seq.c -o seq.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c serialize.c -o serialize.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sort.c -o sort.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c source.c -o source.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c split.c -o split.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sprintf.c -o sprintf.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c startup.c -o startup.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subassign.c -o subassign.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subscript.c -o subscript.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c subset.c -o subset.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c summary.c -o summary.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sysutils.c -o sysutils.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c times.c -o times.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c unique.c -o unique.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c version.c -o version.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_alab_her.c -o g_alab_her.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_cntrlify.c -o g_cntrlify.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_fontdb.c -o g_fontdb.o gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c g_her_glyph.c -o g_her_glyph.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c xxxpr.f -o xxxpr.o gcc -shared -fopenmp -Wl,-z,relro -o libR.so CommandLineArgs.o Rdynload.o Renviron.o RNG.o agrep.o altclasses.o altrep.o apply.o arithmetic.o array.o attrib.o bind.o builtin.o character.o clippath.o coerce.o colors.o complex.o connections.o context.o cum.o dcf.o datetime.o debug.o deparse.o devices.o dotcode.o dounzip.o dstruct.o duplicate.o edit.o engine.o envir.o errors.o eval.o format.o gevents.o gram.o gram-ex.o graphics.o grep.o identical.o inlined.o inspect.o internet.o iosupport.o lapack.o list.o localecharset.o logic.o main.o mapply.o mask.o match.o memory.o names.o objects.o options.o paste.o patterns.o platform.o plot.o plot3d.o plotmath.o print.o printarray.o printvector.o printutils.o qsort.o radixsort.o random.o raw.o registration.o relop.o rlocale.o saveload.o scan.o seq.o serialize.o sort.o source.o split.o sprintf.o startup.o subassign.o subscript.o subset.o summary.o sysutils.o times.o unique.o util.o version.o g_alab_her.o g_cntrlify.o g_fontdb.o g_her_glyph.o xxxpr.o `ls ../unix/*.o ../appl/*.o ../nmath/*.o` ../extra/tre/libtre.a -lblas -lgfortran -lm -lquadmath -lreadline -lpcre2-8 -llzma -lbz2 -lz -ltirpc -lrt -ldl -lm -licuuc -licui18n make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/bin/exec mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/lib make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' gcc -I../../src/extra -I/usr/include/tirpc -I. -I../../src/include -I../../src/include -I../../src/nmath -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmain.c -o Rmain.o gcc -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' making Rhttpd.d from Rhttpd.c making Rsock.d from Rsock.c making internet.d from internet.c making libcurl.d from libcurl.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c internet.c -o internet.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sock.c -o sock.o gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -shared -L"../../../lib" -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/modules make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' gcc -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Lapack.c -o Lapack.o gcc -shared -L"../../../lib" -Wl,-z,relro -o lapack.so Lapack.o -lR -llapack -lblas -lgfortran -lm -lquadmath make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' making devX11.d from devX11.c making rotated.d from rotated.c making rbitmap.d from rbitmap.c make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devX11.c -o devX11.o gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rotated.c -o rotated.o gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rbitmap.c -o rbitmap.o gcc -shared -L"../../../lib" -Wl,-z,relro -o R_X11.so devX11.o rotated.o rbitmap.o -ltiff -ljpeg -lpng16 -lz -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm gcc -I/usr/include/libpng16 -I/usr/include/x86_64-linux-gnu -I. -I../../../src/include -I../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../src/library/grDevices/src/cairo -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dataentry.c -o dataentry.o gcc -shared -L"../../../lib" -Wl,-z,relro -o R_de.so dataentry.o -lSM -lICE -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -lX11 -lXext -lX11 -lXt -lR -lm make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' mkdir -p -- ../../library make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' making text.d from text.c making init.d from init.c making Rmd5.d from Rmd5.c making md5.d from md5.c making signals.d from signals.c making install.d from install.c making getfmts.d from getfmts.c making http.d from http.c making gramLatex.d from gramLatex.c making gramRd.d from gramRd.c making pdscan.d from pdscan.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c text.c -o text.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Rmd5.c -o Rmd5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c md5.c -o md5.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c signals.c -o signals.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c install.c -o install.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c getfmts.c -o getfmts.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c http.c -o http.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gramLatex.c -o gramLatex.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gramRd.c -o gramRd.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pdscan.c -o pdscan.o gcc -shared -L../../../../lib -Wl,-z,relro -o tools.so text.o init.o Rmd5.o md5.o signals.o install.o getfmts.o http.o gramLatex.o gramRd.o pdscan.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' mkdir -p -- ../../../library/compiler/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' byte-compiling package 'compiler' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' byte-compiling package 'base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' byte-compiling package 'tools' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' mkdir -p -- ../../../library/utils/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' making init.d from init.c making io.d from io.c making size.d from size.c making sock.d from sock.c making stubs.d from stubs.c making utils.d from utils.c making hashtab.d from hashtab.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c io.c -o io.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c size.c -o size.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sock.c -o sock.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c hashtab.c -o hashtab.o gcc -shared -L../../../../lib -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o hashtab.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' byte-compiling package 'utils' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' making axis_scales.d from axis_scales.c making chull.d from chull.c making devices.d from devices.c making init.d from init.c making stubs.d from stubs.c making colors.d from colors.c making clippath.d from clippath.c making patterns.d from patterns.c making mask.d from mask.c making group.d from group.c making devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c axis_scales.c -o axis_scales.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chull.c -o chull.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devices.c -o devices.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stubs.c -o stubs.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c colors.c -o colors.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c patterns.c -o patterns.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c group.c -o group.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devCairo.c -o devCairo.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devPicTeX.c -o devPicTeX.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devPS.c -o devPS.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c devQuartz.c -o devQuartz.o gcc -shared -L../../../../lib -Wl,-z,relro -o grDevices.so axis_scales.o chull.o devices.o init.o stubs.o colors.o clippath.o patterns.o mask.o group.o devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' gcc -I. -I../../../../../src/include -I../../../../../src/include -pthread -I/usr/include/pango-1.0 -I/usr/include/harfbuzz -I/usr/include/pango-1.0 -I/usr/include/libmount -I/usr/include/blkid -I/usr/include/fribidi -I/usr/include/harfbuzz -I/usr/include/cairo -I/usr/include/glib-2.0 -I/usr/lib/x86_64-linux-gnu/glib-2.0/include -I/usr/include/pixman-1 -I/usr/include/uuid -I/usr/include/freetype2 -I/usr/include/libpng16 -I../../../../../src/modules/X11 -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cairoBM.c -o cairoBM.o gcc -shared -L"../../../../../lib" -Wl,-z,relro -o cairo.so cairoBM.o ../../../../../src/modules/X11/rbitmap.o -ltiff -ljpeg -lpng16 -lz -lpangocairo-1.0 -lpango-1.0 -lgobject-2.0 -lglib-2.0 -lharfbuzz -lpng16 -lz -lcairo -L"../../../../../lib" -lR -lm make[10]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' byte-compiling package 'grDevices' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' mkdir -p -- ../../../library/graphics/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' making init.d from init.c making base.d from base.c making graphics.d from graphics.c making par.d from par.c making plot.d from plot.c making plot3d.d from plot3d.c making stem.d from stem.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c base.c -o base.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c graphics.c -o graphics.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c par.c -o par.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot.c -o plot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c plot3d.c -o plot3d.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I../../../../src/main -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c stem.c -o stem.o gcc -shared -L../../../../lib -Wl,-z,relro -o graphics.so init.o base.o graphics.o par.o plot.o plot3d.o stem.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' byte-compiling package 'graphics' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' mkdir -p -- ../../../library/stats/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' making init.d from init.c making kmeans.d from kmeans.c making ansari.d from ansari.c making bandwidths.d from bandwidths.c making chisqsim.d from chisqsim.c making d2x2xk.d from d2x2xk.c making fexact.d from fexact.c making kendall.d from kendall.c making ks.d from ks.c making line.d from line.c making smooth.d from smooth.c making prho.d from prho.c making swilk.d from swilk.c making ksmooth.d from ksmooth.c making loessc.d from loessc.c making monoSpl.d from monoSpl.c making isoreg.d from isoreg.c making Srunmed.d from Srunmed.c making dblcen.d from dblcen.c making distance.d from distance.c making hclust-utils.d from hclust-utils.c making nls.d from nls.c making rWishart.d from rWishart.c making HoltWinters.d from HoltWinters.c making PPsum.d from PPsum.c making arima.d from arima.c making burg.d from burg.c making filter.d from filter.c making mAR.d from mAR.c making pacf.d from pacf.c making starma.d from starma.c making port.d from port.c making family.d from family.c making sbart.d from sbart.c making approx.d from approx.c making loglin.d from loglin.c making lowess.d from lowess.c making massdist.d from massdist.c making splines.d from splines.c making lm.d from lm.c making complete_cases.d from complete_cases.c making cov.d from cov.c making deriv.d from deriv.c making fft.d from fft.c making fourier.d from fourier.c making model.d from model.c making optim.d from optim.c making optimize.d from optimize.c making integrate.d from integrate.c making random.d from random.c making distn.d from distn.c making zeroin.d from zeroin.c making rcont.d from rcont.c making influence.d from influence.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kmeans.c -o kmeans.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ansari.c -o ansari.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c bandwidths.c -o bandwidths.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c chisqsim.c -o chisqsim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c d2x2xk.c -o d2x2xk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fexact.c -o fexact.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c kendall.c -o kendall.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ks.c -o ks.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c line.c -o line.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c smooth.c -o smooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c prho.c -o prho.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c swilk.c -o swilk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c ksmooth.c -o ksmooth.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c loessc.c -o loessc.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c monoSpl.c -o monoSpl.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c isoreg.c -o isoreg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c Srunmed.c -o Srunmed.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c dblcen.c -o dblcen.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c distance.c -o distance.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c hclust-utils.c -o hclust-utils.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c nls.c -o nls.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rWishart.c -o rWishart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c HoltWinters.c -o HoltWinters.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c PPsum.c -o PPsum.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c arima.c -o arima.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c burg.c -o burg.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c filter.c -o filter.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mAR.c -o mAR.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c pacf.c -o pacf.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c starma.c -o starma.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c port.c -o port.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c family.c -o family.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c sbart.c -o sbart.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c approx.c -o approx.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c loglin.c -o loglin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lowess.c -o lowess.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c massdist.c -o massdist.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c lm.c -o lm.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c complete_cases.c -o complete_cases.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c cov.c -o cov.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c deriv.c -o deriv.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fft.c -o fft.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fourier.c -o fourier.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c model.c -o model.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optim.c -o optim.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c optimize.c -o optimize.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c integrate.c -o integrate.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c random.c -o random.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c distn.c -o distn.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c zeroin.c -o zeroin.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rcont.c -o rcont.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c influence.c -o influence.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c bsplvd.f -o bsplvd.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c bvalue.f -o bvalue.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c bvalus.f -o bvalus.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c loessf.f -o loessf.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c ppr.f -o ppr.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c qsbart.f -o qsbart.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c sgram.f -o sgram.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c sinerp.f -o sinerp.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c sslvrg.f -o sslvrg.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c stxwx.f -o stxwx.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c hclust.f -o hclust.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c kmns.f -o kmns.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c eureka.f -o eureka.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c stl.f -o stl.o gfortran -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -msse2 -mfpmath=sse -c portsrc.f -o portsrc.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -c lminfl.f -o lminfl.o gcc -shared -L../../../../lib -Wl,-z,relro -o stats.so init.o kmeans.o ansari.o bandwidths.o chisqsim.o d2x2xk.o fexact.o kendall.o ks.o line.o smooth.o prho.o swilk.o ksmooth.o loessc.o monoSpl.o isoreg.o Srunmed.o dblcen.o distance.o hclust-utils.o nls.o rWishart.o HoltWinters.o PPsum.o arima.o burg.o filter.o mAR.o pacf.o starma.o port.o family.o sbart.o approx.o loglin.o lowess.o massdist.o splines.o lm.o complete_cases.o cov.o deriv.o fft.o fourier.o model.o optim.o optimize.o integrate.o random.o distn.o zeroin.o rcont.o influence.o bsplvd.o bvalue.o bvalus.o loessf.o ppr.o qsbart.o sgram.o sinerp.o sslvrg.o stxwx.o hclust.o kmns.o eureka.o stl.o portsrc.o lminfl.o -fopenmp -llapack -lblas -lgfortran -lm -lquadmath -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' byte-compiling package 'stats' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' mkdir -p -- ../../../library/datasets/data Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' mkdir -p -- ../../../library/methods/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' making do_substitute_direct.d from do_substitute_direct.c making init.d from init.c making methods_list_dispatch.d from methods_list_dispatch.c making slot.d from slot.c making class_support.d from class_support.c making tests.d from tests.c making utils.d from utils.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c do_substitute_direct.c -o do_substitute_direct.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c slot.c -o slot.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c class_support.c -o class_support.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tests.c -o tests.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -shared -L../../../../lib -Wl,-z,relro -o methods.so do_substitute_direct.o init.o methods_list_dispatch.o slot.o class_support.o tests.o utils.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' byte-compiling package 'methods' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory initializing class and method definitions ... done make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' mkdir -p -- ../../../library/grid/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' making clippath.d from clippath.c making gpar.d from gpar.c making grid.d from grid.c making just.d from just.c making layout.d from layout.c making mask.d from mask.c making matrix.d from matrix.c making path.d from path.c making register.d from register.c making state.d from state.c making unit.d from unit.c making util.d from util.c making viewport.d from viewport.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c clippath.c -o clippath.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c gpar.c -o gpar.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c grid.c -o grid.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c just.c -o just.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c layout.c -o layout.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c mask.c -o mask.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c matrix.c -o matrix.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c path.c -o path.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c register.c -o register.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c state.c -o state.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c unit.c -o unit.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c util.c -o util.o gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c viewport.c -o viewport.o gcc -shared -L../../../../lib -Wl,-z,relro -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o path.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' byte-compiling package 'grid' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' mkdir -p -- ../../../library/splines/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' making splines.d from splines.c gcc -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c splines.c -o splines.o gcc -shared -L../../../../lib -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' byte-compiling package 'splines' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' mkdir -p -- ../../../library/stats4/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' byte-compiling package 'stats4' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory mkdir -p -- ../../../library/tcltk/exec Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' making init.d from init.c making tcltk.d from tcltk.c making tcltk_unix.d from tcltk_unix.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk.c -o tcltk.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -I/usr/include/tcl8.6 -I/usr/include/tcl8.6 -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c tcltk_unix.c -o tcltk_unix.o gcc -shared -L../../../../lib -Wl,-z,relro -o tcltk.so init.o tcltk.o tcltk_unix.o -L/usr/lib/x86_64-linux-gnu -ltcl8.6 -L/usr/lib/x86_64-linux-gnu -ltk8.6 -lX11 -lXss -lXext -lm -L../../../../lib -lR make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' byte-compiling package 'tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' mkdir -p -- ../../../library/parallel/R Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c init.c -o init.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c rngstream.c -o rngstream.o gcc -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c fork.c -o fork.o gcc -shared -L../../../../lib -Wl,-z,relro -o parallel.so init.o rngstream.o fork.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' byte-compiling package 'parallel' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' you should 'make docs' now ... make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory creating doc/NEWS Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory creating doc/NEWS.pdf Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory creating doc/manual/R-admin.html creating doc/manual/R-data.html creating doc/manual/R-exts.html creating doc/manual/R-intro.html creating doc/manual/R-ints.html creating doc/manual/R-lang.html make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' installing parsed Rd make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory base Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory stats Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory utils Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory methods Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory graphics Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory grDevices Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory datasets Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory grid Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory tools Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory tcltk Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory splines Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory stats4 Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory compiler Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory parallel make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' building/updating package metadata ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' writing package indices make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' (cd doc/manual && /usr/bin/make html) make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' /usr/bin/make info make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. 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R-lang.texi make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' (cd doc/manual && \ /usr/bin/make refman.pdf R-admin.pdf R-data.pdf R-exts.pdf \ R-FAQ.pdf R-intro.pdf R-ints.pdf R-lang.pdf) make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' creating doc/manual/version.tex Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory collecting LaTeX docs for package 'base' ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Converting parsed Rd's to LaTeX ........................................... 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It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . 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First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2231] [2232] [2233] [2234] [2235] [2236] Underfull \hbox (badness 4060) in paragraph at lines 12016--12019 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12039--12039 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2237] [2238] [2239] [2240] Underfull \hbox (badness 2150) in paragraph at lines 12294--12296 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2241] [2242] [2243] [2244] Underfull \hbox (badness 10000) in paragraph at lines 12514--12518 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12547--12553 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2245] Underfull \hbox (badness 2762) in paragraph at lines 12562--12570 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). 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[]\T1/zi4/m/it/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/it/10 tar []\T1/ptm/m/n /10 which used [2274] [2275] Underfull \hbox (badness 6510) in paragraph at lines 14496--14500 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 is set to the com-mand []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-men t vari-able Underfull \hbox (badness 10000) in paragraph at lines 14503--14506 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 14503--14506 \T1/zi4/m/it/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285] Underfull \hbox (badness 10000) in paragraph at lines 15172--15177 []\T1/ptm/m/n/10 Arguments such as []\T1/zi4/m/it/10 destdir []\T1/ptm/m/n/10 a nd []\T1/zi4/m/it/10 dependencies []\T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 15172--15177 [][][]\T1/zi4/m/it/10 install.packages[][][] []\T1/ptm/m/n/10 and []\T1/zi4/m/i t/10 ignore_repo_cache[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 max_repo_cache_age [ ]\T1/ptm/m/n/10 and Underfull \hbox (badness 1052) in paragraph at lines 15178--15180 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. 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(rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.knitr} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mathjaxr} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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(rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.knitr} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mathjaxr} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX 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replaced by a fixed one pdfTeX warning (dest): name{Rfn.chron} has been referenced but does not exist, replaced by a fixed one {/usr/share/texlive/texmf-dist/fonts/enc/dvips/base/8r.enc} {/usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-ts1.enc}{/ usr/share/texlive/texmf-dist/fonts/enc/dvips/inconsolata/i4-t1-0.enc} Output written on refman.pdf (2413 pages, 6529123 bytes). 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This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdflatex) restricted \write18 enabled. entering extended mode (./refman.tex LaTeX2e <2021-11-15> patch level 1 L3 programming layer <2022-01-21> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2021/10/04 v1.4n Standard LaTeX document class (/usr/share/texlive/texmf-dist/tex/latex/base/bk10.clo)) (../../share/texmf/tex/latex/Rd.sty (/usr/share/texlive/texmf-dist/tex/latex/base/ifthen.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/longtable.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/bm.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/alltt.sty) (/usr/share/texlive/texmf-dist/tex/latex/tools/verbatim.sty) (/usr/share/texlive/texmf-dist/tex/latex/url/url.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/textcomp.sty) (/usr/share/texlive/texmf-dist/tex/generic/iftex/iftex.sty) (/usr/share/texlive/texmf-dist/tex/latex/base/fontenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/times.sty) (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/zi4.sty `inconsolata-zi4' v1.12, 2019/05/17 Text macros for Inconsolata (msharpe) (/usr/share/texlive/texmf-dist/tex/latex/xkeyval/xkeyval.sty (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkeyval.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/xkvutils.tex (/usr/share/texlive/texmf-dist/tex/generic/xkeyval/keyval.tex))))) (/usr/share/texlive/texmf-dist/tex/latex/graphics/color.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/color.cfg) (/usr/share/texlive/texmf-dist/tex/latex/graphics-def/pdftex.def)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref.sty (/usr/share/texlive/texmf-dist/tex/generic/ltxcmds/ltxcmds.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdftexcmds/pdftexcmds.sty (/usr/share/texlive/texmf-dist/tex/generic/infwarerr/infwarerr.sty)) (/usr/share/texlive/texmf-dist/tex/generic/kvsetkeys/kvsetkeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/kvdefinekeys/kvdefinekeys.sty) (/usr/share/texlive/texmf-dist/tex/generic/pdfescape/pdfescape.sty) (/usr/share/texlive/texmf-dist/tex/latex/hycolor/hycolor.sty) (/usr/share/texlive/texmf-dist/tex/latex/letltxmacro/letltxmacro.sty) (/usr/share/texlive/texmf-dist/tex/latex/auxhook/auxhook.sty) (/usr/share/texlive/texmf-dist/tex/latex/kvoptions/kvoptions.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/pd1enc.def) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hyperref-langpatches.def) (/usr/share/texlive/texmf-dist/tex/generic/intcalc/intcalc.sty) (/usr/share/texlive/texmf-dist/tex/generic/etexcmds/etexcmds.sty) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/puenc.def) (/usr/share/texlive/texmf-dist/tex/generic/bitset/bitset.sty (/usr/share/texlive/texmf-dist/tex/generic/bigintcalc/bigintcalc.sty)) (/usr/share/texlive/texmf-dist/tex/latex/base/atbegshi-ltx.sty)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/hpdftex.def (/usr/share/texlive/texmf-dist/tex/latex/base/atveryend-ltx.sty) (/usr/share/texlive/texmf-dist/tex/latex/rerunfilecheck/rerunfilecheck.sty (/usr/share/texlive/texmf-dist/tex/generic/uniquecounter/uniquecounter.sty))) Package hyperref Warning: Option `hyperindex' has already been used, (hyperref) setting the option has no effect on input line 388. 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . 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Transcript written on refman.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-admin.texi @setfilename R-admin.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] Cross reference values unknown; you must run TeX again. [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] Underfull \hbox (badness 10000) in paragraph at lines 1420--1426 @textrm (@texttt https:// cran. r-project. org/ bin/ windows/ Rtools/ rt ools42/ rtools. html[]@textrm )[][]. [17] [18] Chapter 4 [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1743--1753 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1888--1888 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2117--2125 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Underfull \hbox (badness 10000) in paragraph at lines 2117--2125 @textrm pack-ages (@texttt https:// cran. r-project. org/ bin/ windows/ b ase/ howto-R-4. 2. html[]@textrm )[][] for [26] [27] [28] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2337--2337 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [29] [30] [31] [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2648--2648 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2668--2668 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2669--2669 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] [33] Chapter 7 [34] [35] [36] Chapter 8 [37] Chapter 9 [38] [39] [40] Appendix A [41] [42] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3307--3307 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [43] [44] [45] [46] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3594--3594 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [47] [48] [49] [50] [51] [52] [53] Appendix B [54] [55] [56] [57] [58] [59] Appendix C [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4894--4894 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [64] [65] Overfull \hbox (134.35066pt too wide) in paragraph at lines 5080--5080 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/pcre2-10.39-d arwin.17-x86_64.tar.xz[] Overfull \hbox (117.1046pt too wide) in paragraph at lines 5082--5082 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/xz-5.2.5-darw in.17-x86_64.tar.xz[] [66] Overfull \hbox (66.67995pt too wide) in paragraph at lines 5166--5166 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5183--5183 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] [67] Underfull \hbox (badness 10000) in paragraph at lines 5211--5215 @texttt releases/ download/ 11. 2-bigsur-intel/ gfortran-Intel-11. 2-BigSu r. dmg[][][] @textrm and for Overfull \hbox (38.79282pt too wide) in paragraph at lines 5218--5219 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5284--5284 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] [69] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5389--5389 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [70] [71] Underfull \hbox (badness 10000) in paragraph at lines 5532--5536 []@textrm To use Java (specif-i-cally, pack-age [][]@textbf rJava @textrm (@tex ttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 5537--5542 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run Overfull \hbox (14.94176pt too wide) in paragraph at lines 5553--5553 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-17.jdk/Contents /Home[] Underfull \hbox (badness 10000) in paragraph at lines 5562--5571 @texttt downloads/ zulu-community/ ? os=macos& architecture=arm-64-bit& pa ckage=jdk[][][] @textrm and [72] [73] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5687--5687 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (36.62297pt too wide) in paragraph at lines 5705--5705 []@texttt PKG_LIBS = /usr/local/clang/lib/libc++.a /usr/local/clang/lib/libc++ abi.a[] Underfull \hbox (badness 6842) in paragraph at lines 5707--5713 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5707--5713 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Overfull \hbox (43.6852pt too wide) in paragraph at lines 5740--5740 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5759--5773 @texttt org/ libs-arm64/ [][][] @textrm and [][]@texttt https:// github. co m/ fxcoudert/ gfortran-for-macOS/ Overfull \hbox (32.18782pt too wide) in paragraph at lines 5796--5796 []@texttt curl -OL https://mac.r-project.org/libs-arm64/jpeg-9d-darwin.20-arm6 4.tar.gz[] [75] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5848--5848 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [76] (Function and variable index) [77] No file R-admin.vrs. (Concept index) [78] No file R-admin.cps. (Environment variable index) [79] No file R-admin.ens. [80] ) (see the transcript file for additional information) Output written on R-admin.pdf (83 pages, 475568 bytes). Transcript written on R-admin.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.t2d/pdf/xtr/R-admin.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-admin.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.aux) Writing index file R-admin.cp Writing index file R-admin.en [1] Chapter 2 [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] Chapter 3 [16] Underfull \hbox (badness 10000) in paragraph at lines 1420--1426 @textrm (@texttt https:// cran. r-project. org/ bin/ windows/ Rtools/ rt ools42/ rtools. html[]@textrm )[][]. [17] [18] Chapter 4 [19] [20] [21] Underfull \hbox (badness 10000) in paragraph at lines 1743--1753 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [22] Chapter 6 [23] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1888--1888 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [24] [25] Underfull \hbox (badness 6842) in paragraph at lines 2117--2125 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Underfull \hbox (badness 10000) in paragraph at lines 2117--2125 @textrm pack-ages (@texttt https:// cran. r-project. org/ bin/ windows/ b ase/ howto-R-4. 2. html[]@textrm )[][] for [26] [27] [28] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2337--2337 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [29] [30] [31] [32] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2648--2648 []@texttt R --arch @textttsl arch @texttt CMD check -l @textttsl lib-dir @text tt --extra-arch --install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2668--2668 []@texttt .../bin/i386/Rcmd check -l @textttsl lib-dir @texttt --extra-arch -- install=check:@textttsl pkg@texttt .log @textttsl pkg[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2669--2669 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] [33] Chapter 7 [34] [35] [36] Chapter 8 [37] Chapter 9 [38] [39] [40] Appendix A [41] [42] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3307--3307 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [43] [44] [45] [46] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3594--3594 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.322.b06-6.fc34.x86_6 4/jre[] [47] [48] [49] [50] [51] [52] [53] Appendix B [54] [55] [56] [57] [58] [59] Appendix C [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4894--4894 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [64] [65] Overfull \hbox (134.35066pt too wide) in paragraph at lines 5080--5080 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/pcre2-10.39-d arwin.17-x86_64.tar.xz[] Overfull \hbox (117.1046pt too wide) in paragraph at lines 5082--5082 []@texttt curl -OL https://mac.r-project.org/bin/darwin17/x86_64/xz-5.2.5-darw in.17-x86_64.tar.xz[] [66] Overfull \hbox (66.67995pt too wide) in paragraph at lines 5166--5166 []@texttt PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconfig:/usr /lib/pkgconfig[] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5183--5183 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] [67] Underfull \hbox (badness 10000) in paragraph at lines 5211--5215 @texttt releases/ download/ 11. 2-bigsur-intel/ gfortran-Intel-11. 2-BigSu r. dmg[][][] @textrm and for Overfull \hbox (38.79282pt too wide) in paragraph at lines 5218--5219 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [68] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5284--5284 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] [69] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5389--5389 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [70] [71] Underfull \hbox (badness 10000) in paragraph at lines 5532--5536 []@textrm To use Java (specif-i-cally, pack-age [][]@textbf rJava @textrm (@tex ttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 5537--5542 []@textrm To see what com-pat-i-ble ver-sions of Java are cur-rently in-stalled , run Overfull \hbox (14.94176pt too wide) in paragraph at lines 5553--5553 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-17.jdk/Contents /Home[] Underfull \hbox (badness 10000) in paragraph at lines 5562--5571 @texttt downloads/ zulu-community/ ? os=macos& architecture=arm-64-bit& pa ckage=jdk[][][] @textrm and [72] [73] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5687--5687 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (36.62297pt too wide) in paragraph at lines 5705--5705 []@texttt PKG_LIBS = /usr/local/clang/lib/libc++.a /usr/local/clang/lib/libc++ abi.a[] Underfull \hbox (badness 6842) in paragraph at lines 5707--5713 @textrm in @texttt src/Makevars[]@textrm . It would also be pos-si-ble to stat ic link the For- Underfull \hbox (badness 10000) in paragraph at lines 5707--5713 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and Overfull \hbox (43.6852pt too wide) in paragraph at lines 5740--5740 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5759--5773 @texttt org/ libs-arm64/ [][][] @textrm and [][]@texttt https:// github. co m/ fxcoudert/ gfortran-for-macOS/ Overfull \hbox (32.18782pt too wide) in paragraph at lines 5796--5796 []@texttt curl -OL https://mac.r-project.org/libs-arm64/jpeg-9d-darwin.20-arm6 4.tar.gz[] [75] Overfull \hbox (72.77429pt too wide) in paragraph at lines 5848--5848 [][][][][]@smalltt https:// cran. r-project. org/ bin/ macosx/ RMacOSX-FA Q. html# Which-BLAS-is-used-and-how-can-it-be-changed_003f[][][]| [76] (Function and variable index) [77] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.vrs) (Concept index) [78] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.cps) (Environment variable index) [79] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-admin.ens) [80] ) (see the transcript file for additional information) Output written on R-admin.pdf (85 pages, 519398 bytes). Transcript written on R-admin.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-data.texi @setfilename R-data.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) [1] Chapter 1 [2] Writing index file R-data.cp Cross reference values unknown; you must run TeX again. [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 434--437 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 445--449 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1219--1231 @textrm (@texttt https:// www. ibm. com/ software/ data/ informix/ []@te xtrm )[][]; [][]Oracle (@texttt https:// www. oracle. [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] No file R-data.vrs. (Concept index) [34] No file R-data.cps. [35] ) (see the transcript file for additional information) Output written on R-data.pdf (38 pages, 269300 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc [-1]) [-2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc) (Acknowledgements) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.aux) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 434--437 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 445--449 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1219--1231 @textrm (@texttt https:// www. ibm. com/ software/ data/ informix/ []@te xtrm )[][]; [][]Oracle (@texttt https:// www. oracle. [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309051 bytes). Transcript written on R-data.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.t2d/pdf/xtr/R-data.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-data.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc [-1]) [-2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.toc) (Acknowledgements) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.aux) [1] Chapter 1 [2] Writing index file R-data.cp [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 434--437 []@textrm Function @texttt write.matrix[] @textrm in pack-age [][]@textbf MASS @textrm (@texttt https:// CRAN. R-project. org/ Underfull \hbox (badness 10000) in paragraph at lines 445--449 []@textrm Function @texttt write.foreign[] @textrm in pack-age [][]@textbf fore ign @textrm (@texttt https:// CRAN. R-project. org/ [6] Chapter 2 [7] [8] [9] [10] [11] [12] [13] Chapter 3 [14] [15] Chapter 4 [16] Underfull \hbox (badness 10000) in paragraph at lines 1219--1231 @textrm (@texttt https:// www. ibm. com/ software/ data/ informix/ []@te xtrm )[][]; [][]Oracle (@texttt https:// www. oracle. [17] [18] [19] [20] [21] [22] Chapter 5 [23] Underfull \hbox (badness 10000) in paragraph at lines 1793--1799 []@textrm Packages [][]@textbf h5 @textrm (@texttt https:// CRAN. R-project. org/ package=h5[]@textrm )[][], Bio-con-duc-tor's @textbf rhdf5@textrm , Chapter 6 [24] Chapter 7 [25] [26] [27] [28] [29] Chapter 8 [30] Chapter 9 [31] Appendix A [32] (Function and variable index) [33] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309054 bytes). Transcript written on R-data.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-exts.texi @setfilename R-exts.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Acknowledgements) Chapter 1 [1] Writing index file R-exts.cp Cross reference values unknown; you must run TeX again. [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] Underfull \hbox (badness 10000) in paragraph at lines 1571--1578 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2195--2195 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] Underfull \hbox (badness 10000) in paragraph at lines 2365--2367 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2597--2597 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2599--2599 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2737--2737 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2912--2912 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2935--2941 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3115--3115 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] Overfull \hbox (2.98494pt too wide) in paragraph at lines 3147--3149 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4492--4492 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4717--4717 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4736--4736 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5168--5168 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5178--5178 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5180--5180 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5181--5181 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5196--5196 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5540--5540 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] Underfull \hbox (badness 10000) in paragraph at lines 5700--5703 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5793--5793 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5921--5921 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5969--5969 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] Underfull \hbox (badness 10000) in paragraph at lines 6020--6021 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6261--6261 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8447--8447 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8812--8812 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8853--8853 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8957--8957 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8987--8996 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Underfull \hbox (badness 10000) in paragraph at lines 9256--9268 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9272--9273 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9410--9410 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9443--9445 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] Underfull \hbox (badness 10000) in paragraph at lines 9531--9535 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [125] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9566--9570 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. Overfull \hbox (72.42863pt too wide) in paragraph at lines 9589--9589 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9634--9634 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9637--9637 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [127] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9716--9716 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [128] [129] [130] Underfull \hbox (badness 10000) in paragraph at lines 9958--9960 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [131] Overfull \hbox (124.16682pt too wide) in paragraph at lines 10015--10015 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10034--10034 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10045--10045 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10065--10065 [] @tex ttt 1[] [132] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10074--10074 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10075--10075 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10859--10859 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10922--10922 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11500--11500 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12360--12360 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [163] Underfull \hbox (badness 10000) in paragraph at lines 12510--12514 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [164] [165] [166] [167] [168] [169] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13071--13071 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13195--13195 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13200--13200 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13255--13255 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13268--13268 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13367--13367 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13516--13516 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13606--13606 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13701--13701 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14430--14430 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] Underfull \hbox (badness 10000) in paragraph at lines 15166--15170 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [197] [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15389--15389 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] [205] Chapter 7 [206] [207] Chapter 8 [208] [209] [210] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16149--16149 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [211] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16192--16192 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16207--16207 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [212] [213] [214] [215] [216] [217] [218] [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 16857--16861 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [221] No file R-exts.vrs. (Concept index) [222] No file R-exts.cps. [223] ) (see the transcript file for additional information) Output written on R-exts.pdf (226 pages, 969333 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc) (Acknowledgements) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] Underfull \hbox (badness 10000) in paragraph at lines 1571--1578 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2195--2195 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] Underfull \hbox (badness 10000) in paragraph at lines 2365--2367 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2597--2597 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2599--2599 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2737--2737 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2912--2912 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2935--2941 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3115--3115 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] Overfull \hbox (2.98494pt too wide) in paragraph at lines 3147--3149 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4492--4492 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4717--4717 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4736--4736 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5168--5168 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5178--5178 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5180--5180 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5181--5181 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5196--5196 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5540--5540 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] Underfull \hbox (badness 10000) in paragraph at lines 5700--5703 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5793--5793 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5921--5921 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5969--5969 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] Underfull \hbox (badness 10000) in paragraph at lines 6020--6021 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6261--6261 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8447--8447 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8812--8812 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8853--8853 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8957--8957 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8987--8996 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Underfull \hbox (badness 10000) in paragraph at lines 9256--9268 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9272--9273 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9410--9410 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9443--9445 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] Underfull \hbox (badness 10000) in paragraph at lines 9531--9535 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [125] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9566--9570 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. Overfull \hbox (72.42863pt too wide) in paragraph at lines 9589--9589 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [126] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9634--9634 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9637--9637 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [127] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9716--9716 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [128] [129] [130] Underfull \hbox (badness 10000) in paragraph at lines 9958--9960 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [131] Overfull \hbox (124.16682pt too wide) in paragraph at lines 10015--10015 []@texttt boot.f:61: warning: type of 'ddot' does not match original declarati on [-Wlto-type-mismatch][] Overfull \hbox (147.16158pt too wide) in paragraph at lines 10034--10034 []@texttt rkpk2.f:77:5: warning: type of 'dstup' does not match original decla ration [-Wlto-type-mismatch][] Overfull \hbox (141.41289pt too wide) in paragraph at lines 10045--10045 []@texttt reg.f:78:33: warning: type of 'dqrdc' does not match original declar ation [-Wlto-type-mismatch][] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10065--10065 [] @tex ttt 1[] [132] Overfull \hbox (14.94176pt too wide) in paragraph at lines 10074--10074 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 10075--10075 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [133] [134] [135] [136] [137] [138] [139] [140] [141] [142] [143] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10859--10859 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10922--10922 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [144] [145] [146] [147] [148] [149] [150] [151] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11500--11500 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12360--12360 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [163] Underfull \hbox (badness 10000) in paragraph at lines 12510--12514 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [164] [165] [166] [167] [168] [169] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13071--13071 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13195--13195 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13200--13200 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13255--13255 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13268--13268 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13367--13367 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13516--13516 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13606--13606 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13701--13701 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14430--14430 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] Underfull \hbox (badness 10000) in paragraph at lines 15166--15170 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [197] [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15389--15389 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] Chapter 7 [205] [206] Chapter 8 [207] [208] [209] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16149--16149 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [210] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16192--16192 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16207--16207 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [211] [212] [213] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 16857--16861 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [220] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.vrs [221] [222] [223] [224]) (Concept index) [225] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.cps [226]) [227] ) (see the transcript file for additional information) Output written on R-exts.pdf (234 pages, 1046547 bytes). Transcript written on R-exts.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.t2d/pdf/xtr/R-exts.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-exts.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.toc) (Acknowledgements) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.aux) Chapter 1 [1] Writing index file R-exts.cp [2] [3] [4] [5] Underfull \hbox (badness 10000) in paragraph at lines 500--503 []@textrm The `@texttt Depends[]@textrm '[], `@texttt Imports[]@textrm '[], `@t exttt Suggests[]@textrm '[], `@texttt Enhances[]@textrm '[], `@texttt LinkingTo []@textrm '[] and [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] Overfull \hbox (95.42339pt too wide) in paragraph at lines 1538--1538 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1539--1539 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1540--1540 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] Underfull \hbox (badness 10000) in paragraph at lines 1571--1578 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [21] [22] [23] [24] [25] Overfull \hbox (32.18782pt too wide) in paragraph at lines 1963--1963 []@texttt $ pkg-config --exists 'libtiff-4 >= 4.1.0' --print-errors # check th e status[] [26] [27] [28] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2195--2195 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [29] [30] Underfull \hbox (badness 10000) in paragraph at lines 2365--2367 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [31] [32] [33] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2597--2597 []@smalltt SOURCES = $(wildcard data/*.cpp network/*.cpp utils/*.cpp model/*.c pp model/*/*.cpp model/*/*/*.cpp)[] Overfull \hbox (53.60722pt too wide) in paragraph at lines 2599--2599 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [34] [35] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2737--2737 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [36] [37] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2912--2912 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2935--2941 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [38] [39] [40] Overfull \hbox (43.6852pt too wide) in paragraph at lines 3115--3115 []@texttt if test -z "$CMAKE"; then CMAKE=/Applications/CMake.app/Contents/bin /cmake; fi[] Overfull \hbox (2.98494pt too wide) in paragraph at lines 3147--3149 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4492--4492 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [58] [59] [60] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4717--4717 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4736--4736 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [61] [62] [63] [64] [65] [66] Overfull \hbox (30.87428pt too wide) in paragraph at lines 5168--5168 []@texttt 1.1 1.2 1.3 1.4 5.0 6 7 8 9 10 11 12 13 14 15 16 17 18 (announced 19 20)[] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5178--5178 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 5180--5180 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 5181--5181 [] @texttt if(jvn < 1.8) stop("Java >= 8 is needed for this package but not a vailable")[] Overfull \hbox (76.86378pt too wide) in paragraph at lines 5196--5196 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [67] [68] [69] [70] [71] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5540--5540 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [72] [73] Underfull \hbox (badness 10000) in paragraph at lines 5700--5703 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [74] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5793--5793 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [75] [76] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5921--5921 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5969--5969 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] Underfull \hbox (badness 10000) in paragraph at lines 6020--6021 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [78] [79] [80] Overfull \hbox (19.3769pt too wide) in paragraph at lines 6261--6261 []@texttt #define dngettext(pkg, String, StringP, N) (N == 1 ? String : String P)[] [81] [82] [83] Chapter 2 [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] Underfull \hbox (badness 10000) in paragraph at lines 7523--7530 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [98] [99] [100] [101] [102] [103] Chapter 3 [104] [105] [106] [107] [108] [109] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8447--8447 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [110] [111] Chapter 4 [112] [113] [114] [115] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8812--8812 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [116] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8853--8853 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [117] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8957--8957 []@smalltt debugging in: glm.fit(x = X, y = Y, weights = weights, start = star t, etastart = etastart,[] Overfull \hbox (38.96663pt too wide) in paragraph at lines 8987--8996 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [118] [119] [120] [121] Underfull \hbox (badness 10000) in paragraph at lines 9256--9268 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9272--9273 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [122] [123] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9410--9410 []@texttt setenv ASAN_OPTIONS 'alloc_dealloc_mismatch=0:detect_leaks=0:detect_ odr_violation=0'[] Overfull \hbox (29.50735pt too wide) in paragraph at lines 9443--9445 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [124] Underfull \hbox (badness 10000) in paragraph at lines 9531--9535 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [125] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9566--9570 []@textrm See [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc-10. 1. 0/ gcc/ Static-Analyzer-Options. 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"better safe than s orry"[] [171] [172] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13195--13195 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13200--13200 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13255--13255 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13268--13268 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [174] Overfull \hbox (26.43913pt too wide) in paragraph at lines 13367--13367 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [175] [176] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13516--13516 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [177] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13606--13606 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [178] [179] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13701--13701 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [180] [181] [182] [183] [184] [185] [186] [187] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14430--14430 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14442--14447 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [188] [189] [190] [191] [192] [193] [194] [195] [196] Underfull \hbox (badness 10000) in paragraph at lines 15166--15170 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [197] [198] Warning: unbalanced parentheses in @def... [199] [200] Overfull \hbox (26.43913pt too wide) in paragraph at lines 15389--15389 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [201] [202] [203] [204] Chapter 7 [205] [206] Chapter 8 [207] [208] [209] Overfull \hbox (43.6852pt too wide) in paragraph at lines 16149--16149 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [210] Overfull \hbox (20.69044pt too wide) in paragraph at lines 16192--16192 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 16207--16207 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [211] [212] [213] [214] [215] [216] [217] [218] [219] Underfull \hbox (badness 10000) in paragraph at lines 16857--16861 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [220] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.vrs [221] [222] [223] [224]) (Concept index) [225] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-exts.cps [226]) [227] ) (see the transcript file for additional information) Output written on R-exts.pdf (234 pages, 1046528 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-FAQ.texi @setfilename R-FAQ.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] [-1] Chapter 1 Cross reference values unknown; you must run TeX again. [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 642--645 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 642--645 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 642--645 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 669--674 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 @texttt Commercialized_versions_of_R[][][] @textrm for point-ers to com-mer-cia l-ized ver-sions of Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] Underfull \hbox (badness 10000) in paragraph at lines 3133--3147 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (50 pages, 353701 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 642--645 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 642--645 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 642--645 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 669--674 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 @texttt Commercialized_versions_of_R[][][] @textrm for point-ers to com-mer-cia l-ized ver-sions of Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] Underfull \hbox (badness 10000) in paragraph at lines 3133--3147 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 369887 bytes). Transcript written on R-FAQ.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.t2d/pdf/xtr/R-FAQ.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) (/usr/share/texmf/tex/texinfo/txi-en.tex) [1{/var/lib/texmf/fonts/map/pdftex/up dmap/pdftex.map}] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-FAQ.aux) [1] Chapter 2 [2] Underfull \hbox (badness 10000) in paragraph at lines 290--312 @textrm and sparc @reducedrm CPU[]@textrm s (e.g., [][]@texttt https:// buildd . debian. org/ build. php? & pkg=r-base[][][]@textrm ), [3] [4] [5] [6] Underfull \hbox (badness 10000) in paragraph at lines 642--645 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 642--645 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 642--645 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 669--674 @textrm (doi: [][]10.1080/10618600.1996.10474713 (@texttt https:// doi. org/ 10. 1080/ 10618600. 1996. [8] [9] Chapter 3 [10] [11] [12] [13] [14] [15] [16] [17] [18] Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1536--1539 @texttt Commercialized_versions_of_R[][][] @textrm for point-ers to com-mer-cia l-ized ver-sions of Chapter 4 [19] Chapter 5 [20] [21] [22] [23] [24] Chapter 6 [25] [26] Chapter 7 [27] [28] [29] [30] [31] [32] [33] [34] [35] [36] [37] [38] Writing index file R-FAQ.fn [39] Underfull \hbox (badness 10000) in paragraph at lines 3133--3147 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] [42] Chapter 8 [43] Chapter 9 [44] [45] Chapter 10 [46] [47] [48] ) (see the transcript file for additional information) Output written on R-FAQ.pdf (52 pages, 369885 bytes). Transcript written on R-FAQ.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-intro.texi @setfilename R-intro.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] (Preface) Cross reference values unknown; you must run TeX again. Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4842--4844 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5257--5267 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] No file R-intro.vrs. Appendix E [102] No file R-intro.cps. Appendix F [103] [104] ) (see the transcript file for additional information) Output written on R-intro.pdf (107 pages, 574816 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc) (Preface) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4842--4844 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5257--5267 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 631879 bytes). Transcript written on R-intro.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.t2d/pdf/xtr/R-intro.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-intro.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.toc) (Preface) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.aux) Chapter 1 [1] Writing index file R-intro.cp [2] [3] [4] [5] Chapter 2 [6] [7] [8] [9] [10] [11] [12] Chapter 3 [13] [14] [15] Chapter 4 [16] [17] Chapter 5 [18] [19] [20] [21] [22] [23] [24] [25] [26] [27] Chapter 6 [28] [29] [30] [31] Chapter 7 [32] [33] [34] Chapter 8 [35] [36] [37] [38] [39] [40] [41] Chapter 9 [42] [43] Chapter 10 [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] Chapter 11 [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 4842--4844 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] Underfull \hbox (badness 10000) in paragraph at lines 5257--5267 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ [66] Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5737--5737 []@texttt > text(x, y, expression(paste(bgroup("(", atop(n, x), ")"), p^x, q^{ n-x})))[] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Chapter 13 [82] Underfull \hbox (badness 10000) in paragraph at lines 6443--6448 []@textrm Users con-nected to the In-ter-net can use the @texttt install.packag es()[] @textrm and [83] Chapter 14 [84] [85] Underfull \hbox (badness 10000) in paragraph at lines 6644--6649 []@textrm Windows' UNC filepaths (such as @texttt \\server\dir1\dir2\file[] @t extrm and [86] Appendix A [87] [88] [89] [90] Appendix B [91] [92] [93] [94] [95] [96] [97] [98] Appendix C [99] [100] Appendix D [101] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-intro.cps [105]) Appendix F [106] [107] ) (see the transcript file for additional information) Output written on R-intro.pdf (113 pages, 631943 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi @setfilename R-ints.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4628--4628 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] No file R-ints.vrs. (Concept index) [73] No file R-ints.cps. [74] ) (see the transcript file for additional information) Output written on R-ints.pdf (77 pages, 416567 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4628--4628 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.vrs [73] [74]) (Concept index) [75] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.cps) [76] ) (see the transcript file for additional information) Output written on R-ints.pdf (81 pages, 468957 bytes). Transcript written on R-ints.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.aux) Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1501--1501 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1502--1502 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1503--1503 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1504--1504 [] @texttt head(sort(names(meth.Ops))) ## "abIndex#abIndex" ... "ANY#ddiMatrix " "ANY#ldiMatrix" "ANY#Matrix"[] [19] [20] [21] [22] [23] [24] Chapter 2 [25] Overfull \hbox (26.43913pt too wide) in paragraph at lines 2022--2022 [] @texttt if (!is.character(x)) x <- structure(as.character(x), names = na mes(x))[] [26] [27] [28] [29] Chapter 3 [30] [31] Chapter 4 [32] [33] Chapter 5 [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] Chapter 7 [49] Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3768--3777 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [50] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3819--3823 []@textrm The de-fault path for a per-sonal li-brary di-rec-tory is set as @te xttt ~/Library/R/arch/x.y/library[]@textrm . Chapter 8 [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 []@textrm A string with comma-separated @textttsl name@texttt =@textttsl value [] @textrm pairs (with @textsl value[] @textrm a Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm log-i-cal con-stant) giv-ing ad-di-tional ar-gu-ments for the [][]@tex tbf codetools Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4139--4147 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] [62] [63] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4628--4628 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [64] Chapter 9 [65] [66] Chapter 10 [67] Chapter 11 [68] Chapter 12 [69] [70] (Function and variable index) [71] [72] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.vrs [73] [74]) (Concept index) [75] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-ints.cps) [76] ) (see the transcript file for additional information) Output written on R-ints.pdf (81 pages, 468948 bytes). Transcript written on R-ints.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-lang.texi @setfilename R-lang.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-lang.cp Chapter 2 [1] [2] Cross reference values unknown; you must run TeX again. Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] No file R-lang.vrs. (Concept Index) [60] No file R-lang.cps. Appendix A [61] [62] ) (see the transcript file for additional information) Output written on R-lang.pdf (65 pages, 330812 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 380202 bytes). Transcript written on R-lang.log. This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.t2d/pdf/xtr/R-lang.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-lang.vr (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc [-1] [-2]) [-3] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc) (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.toc) Chapter 1 (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.aux) Writing index file R-lang.cp Chapter 2 [1] [2] Overfull \hbox (8.41086pt too wide) in paragraph at lines 293--294 @textbf storage.mode| [3] [4] [5] [6] [7] [8] Chapter 3 [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] [23] Chapter 4 [24] [25] [26] [27] Chapter 5 [28] [29] [30] [31] [32] [33] [34] Chapter 6 [35] [36] [37] [38] [39] [40] [41] [42] [43] Chapter 7 [44] [45] Chapter 8 [46] [47] Chapter 9 [48] [49] [50] Chapter 10 [51] [52] [53] [54] [55] [56] [57] [58] (Function and Variable Index) [59] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/r-base-RaPyev/r-base-4.2.0/doc/manual/R-lang.cps) [62] Appendix A [63] [64] ) (see the transcript file for additional information) Output written on R-lang.pdf (69 pages, 380195 bytes). Transcript written on R-lang.log. make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' /usr/bin/make -k pdf make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory PDF/LaTeX documentation: full reference index ... 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It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . As Underfull \hbox (badness 4995) in paragraph at lines 143--151 []\T1/zi4/m/n/10 double.neg.ulp.digits []\T1/ptm/m/n/10 is bounded be-low by [] \T1/zi4/m/n/10 -(double.digits + 3)[]\T1/ptm/m/n/10 , [3] [4] [5] Underfull \hbox (badness 1178) in paragraph at lines 328--331 []\T1/ptm/m/n/10 character string, the pre-ferred set-ting for [][][]\T1/zi4/m/ n/10 options[][][]("pkgType")[]\T1/ptm/m/n/10 . Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2231] [2232] [2233] [2234] [2235] [2236] Underfull \hbox (badness 4060) in paragraph at lines 12016--12019 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12039--12039 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2237] [2238] [2239] [2240] Underfull \hbox (badness 2150) in paragraph at lines 12294--12296 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2241] [2242] [2243] [2244] Underfull \hbox (badness 10000) in paragraph at lines 12514--12518 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12547--12553 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2245] Underfull \hbox (badness 2762) in paragraph at lines 12562--12570 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2246] [2247] Underfull \hbox (badness 1009) in paragraph at lines 12741--12753 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12781--12783 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2248] Underfull \hbox (badness 1077) in paragraph at lines 12811--12818 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2249] [2250] [2251] [2252] [2253] [2254] [2255] Underfull \hbox (badness 3780) in paragraph at lines 13219--13223 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13235--13238 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2256] [2257] [2258] Underfull \hbox (badness 2302) in paragraph at lines 13440--13442 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2259] [2260] [2261] [2262] [2263] Underfull \hbox (badness 10000) in paragraph at lines 13739--13744 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13748--13751 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2264] [2265] [2266] [2267] [2268] [2269] [2270] Underfull \hbox (badness 2932) in paragraph at lines 14181--14188 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14181--14188 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2271] [2272] [2273] Underfull \hbox (badness 1460) in paragraph at lines 14346--14354 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). []\T1/zi4/m/it/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/it/10 tar []\T1/ptm/m/n /10 which used [2274] [2275] Underfull \hbox (badness 6510) in paragraph at lines 14496--14500 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 is set to the com-mand []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-men t vari-able Underfull \hbox (badness 10000) in paragraph at lines 14503--14506 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 14503--14506 \T1/zi4/m/it/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285] Underfull \hbox (badness 10000) in paragraph at lines 15172--15177 []\T1/ptm/m/n/10 Arguments such as []\T1/zi4/m/it/10 destdir []\T1/ptm/m/n/10 a nd []\T1/zi4/m/it/10 dependencies []\T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 15172--15177 [][][]\T1/zi4/m/it/10 install.packages[][][] []\T1/ptm/m/n/10 and []\T1/zi4/m/i t/10 ignore_repo_cache[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 max_repo_cache_age [ ]\T1/ptm/m/n/10 and Underfull \hbox (badness 1052) in paragraph at lines 15178--15180 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. 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(rerunfilecheck) Rerun to get outlines right (rerunfilecheck) or use package `bookmark'. ) (see the transcript file for additional information)pdfTeX warning (dest): name {Rfn.write.matrix} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.lmList} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.knitr} has been referenced but does not exist, replaced by a fixed one pdfTeX warning (dest): name{Rfn.mathjaxr} has been referenced but does not exis t, replaced by a fixed one pdfTeX warning (dest): name{Rfn.dgTMatrix} has been referenced but does not exi st, replaced by a fixed one pdfTeX warning (dest): name{Rfn.glht} has been referenced but does not exist, r eplaced by a fixed one pdfTeX warning (dest): name{Rfn.survreg} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.coxph} has been referenced but does not exist, replaced by a fixed one pdfTeX 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[1] [2] Underfull \hbox (badness 6252) in paragraph at lines 143--151 []\T1/ptm/m/n/10 a small pos-i-tive floating-point num-ber []\T1/zi4/m/n/10 x [ ]\T1/ptm/m/n/10 such that []\T1/zi4/m/n/10 1 - x != 1[]\T1/ptm/m/n/10 . It Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/ptm/m/n/10 equals []\T1/zi4/m/n/10 double.base ^ double.neg.ulp.digits []\T 1/ptm/m/n/10 if []\T1/zi4/m/n/10 double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 []\T1/ptm/m/n/10 is 2 or []\T1/zi4/m/n/10 double.rounding []\T1/ptm/m/n/10 is 0 ; oth-er-wise, it is []\T1/zi4/m/n/10 (double.base Underfull \hbox (badness 10000) in paragraph at lines 143--151 \T1/zi4/m/n/10 ^ double.neg.ulp.digits) / 2[]\T1/ptm/m/n/10 . Nor-mally []\T1/z i4/m/n/10 1.110223e-16[]\T1/ptm/m/n/10 . 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This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2231] [2232] [2233] [2234] [2235] [2236] Underfull \hbox (badness 4060) in paragraph at lines 12016--12019 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12039--12039 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2237] [2238] [2239] [2240] Underfull \hbox (badness 2150) in paragraph at lines 12294--12296 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2241] [2242] [2243] [2244] Underfull \hbox (badness 10000) in paragraph at lines 12514--12518 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12547--12553 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2245] Underfull \hbox (badness 2762) in paragraph at lines 12562--12570 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2246] [2247] Underfull \hbox (badness 1009) in paragraph at lines 12741--12753 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12781--12783 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2248] Underfull \hbox (badness 1077) in paragraph at lines 12811--12818 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2249] [2250] [2251] [2252] [2253] [2254] [2255] Underfull \hbox (badness 3780) in paragraph at lines 13219--13223 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13235--13238 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2256] [2257] [2258] Underfull \hbox (badness 2302) in paragraph at lines 13440--13442 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2259] [2260] [2261] [2262] [2263] Underfull \hbox (badness 10000) in paragraph at lines 13739--13744 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13748--13751 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2264] [2265] [2266] [2267] [2268] [2269] [2270] Underfull \hbox (badness 2932) in paragraph at lines 14181--14188 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14181--14188 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. 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Val-ues [6] [7] [8] [9] Underfull \hbox (badness 2556) in paragraph at lines 567--573 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/n/10 insertions[]\T1/ptm/m/n/10 ', [10] [11] [12] (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/ts1zi4.fd) [13] [14] [15] [16] [17] [18] [19] [20] [21] [22] (/usr/share/texlive/texmf-dist/tex/latex/base/t1cmtt.fd) (/usr/share/texlive/texmf-dist/tex/latex/base/ts1cmtt.fd) [23] [24] [25] Underfull \hbox (badness 10000) in paragraph at lines 1578--1584 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2056--2056 []\T1/zi4/m/n/9 ## http://www.mathworks.de/de/help/matlab/matlab_prog/represen t-date-and-times-in-MATLAB.html)[] [33] [34] [35] [36] [37] [38] [39] [40] [41] [42] [43] Underfull \hbox (badness 1721) in paragraph at lines 2720--2724 [][][]\T1/zi4/m/n/10 assign[][][] []\T1/ptm/m/n/10 (and its in-verse [][][]\T1/ zi4/m/n/10 get[][][][]\T1/ptm/m/n/10 ), for ``sub-assign-ment'' such as []\T1/z i4/m/n/10 x[i] <- v[]\T1/ptm/m/n/10 , see [][][]\T1/zi4/m/n/10 [<-[][][][]\T1/p tm/m/n/10 ; fur-ther, [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] [61] Underfull \hbox (badness 10000) in paragraph at lines 3901--3903 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] [81] Underfull \hbox (badness 2521) in paragraph at lines 5196--5198 []\T1/ptm/m/n/10 a char-ac-ter vec-tor, or an ob-ject that can be co-erced to c har-ac-ter by [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] [100] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6387--6387 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [101] [102] [103] [104] [105] [106] [107] [108] [109] [110] [111] [112] Underfull \hbox (badness 1303) in paragraph at lines 7281--7288 []\T1/zi4/m/n/10 file []\T1/ptm/m/n/10 can be used with []\T1/zi4/m/n/10 descri ption = "clipboard" []\T1/ptm/m/n/10 in mode []\T1/zi4/m/n/10 "r" []\T1/ptm/m/n /10 only. This reads the [113] Underfull \hbox (badness 2111) in paragraph at lines 7292--7297 []\T1/ptm/m/n/10 Unix users wish-ing to \T1/ptm/m/it/10 write \T1/ptm/m/n/10 to one of the X11 se-lec-tions may be able to do so via [114] [115] Underfull \vbox (badness 10000) has occurred while \output is active [116] [117] [118] [119] [120] [121] [122] [123] [124] Underfull \hbox (badness 2096) in paragraph at lines 7962--7966 \T1/zi4/m/n/10 status _ codes$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / List _ of _ FTP _ server _ return _ codes$ [][]\T1/ptm/m/n/10 . [125] Underfull \hbox (badness 2351) in paragraph at lines 8076--8079 [][][]\T1/zi4/m/n/10 split[][][] []\T1/ptm/m/n/10 for split-ting a vari-able ac -cord-ing to a group fac-tor; [][][]\T1/zi4/m/n/10 factor[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 tabulate[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 t able[][][][]\T1/ptm/m/n/10 , [126] [127] [128] [129] [130] Underfull \hbox (badness 4479) in paragraph at lines 8393--8404 [][][]\T1/zi4/m/n/10 I[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 plot.data.f rame[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 print.data.frame[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 row.names[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi 4/m/n/10 names[][][] []\T1/ptm/m/n/10 (for the col-umn names), [131] [132] [133] [134] [135] [136] [137] Underfull \hbox (badness 1629) in paragraph at lines 8845--8857 []\T1/ptm/m/n/10 A few times have spe-cific is-sues. First, the leap sec-onds a re ig-nored, and real times Underfull \hbox (badness 2875) in paragraph at lines 8845--8857 []\T1/zi4/m/n/10 NA[]\T1/ptm/m/n/10 , and hence []\T1/zi4/m/n/10 as.POSIXct("19 69-12-31 23:59:59", tz = "UTC") []\T1/ptm/m/n/10 will give []\T1/zi4/m/n/10 "19 69-12-31 [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] [148] Underfull \hbox (badness 1178) in paragraph at lines 9596--9600 []\T1/ptm/m/n/10 If true, [][][]\T1/zi4/m/n/10 list[][][][]\T1/ptm/m/n/10 s and atomic vec-tors with non-[][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 names (see [][][]\T1/zi4/m/n/10 names[][][][]\T1/ptm/m/n/10 ) are de- [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] Underfull \hbox (badness 2744) in paragraph at lines 11903--11905 []\T1/ptm/m/n/10 Changing the cur-rent en-cod-ing from a run-ning R ses-sion ma y lead to con-fu-sion (see [184] [185] [186] [187] [188] [189] [190] [191] [192] [193] [194] [195] [196] [197] [198] [199] [200] [201] [202] [203] [204] [205] [206] [207] [208] [209] [210] [211] [212] [213] [214] [215] Underfull \hbox (badness 2253) in paragraph at lines 14094--14096 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [216] [217] Underfull \hbox (badness 1565) in paragraph at lines 14170--14174 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] []\T1/ptm/m/n/10 to find out about sym- bolic links, [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 file.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.files[][][] []\T1/ptm/m/n/10 , and Underfull \hbox (badness 4927) in paragraph at lines 14214--14216 []\T1/ptm/m/n/10 It can also be used for en-vi-ron-ment paths such as []\T1/zi4 /m/n/10 PATH []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 R_LIBS []\T1/ptm/m/n/10 with []\T1/zi4/m/n/10 fsep = [218] [219] Underfull \hbox (badness 3148) in paragraph at lines 14316--14321 [][][]\T1/zi4/m/n/10 files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 list.fi les[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 help[][][][]\T1/ptm/m/n/10 ; [ ][][]\T1/zi4/m/n/10 RShowDoc[][][] []\T1/ptm/m/n/10 call []\T1/zi4/m/n/10 file. show() []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 type = "text"[]\T1/ptm/m/n/10 . Co n-sider [220] Underfull \hbox (badness 1466) in paragraph at lines 14363--14366 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For []\T 1/zi4/m/n/10 file.copy []\T1/ptm/m/n/10 and [221] [222] Underfull \hbox (badness 10000) in paragraph at lines 14494--14498 [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 fil e.access[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.path[][][][]\T1/ptm/ m/n/10 , [][][]\T1/zi4/m/n/10 file.show[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m /n/10 list.files[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 unlink[][][][]\T1 /ptm/m/n/10 , [][][]\T1/zi4/m/n/10 basename[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 14505--14508 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [223] [224] [225] [226] Underfull \hbox (badness 3965) in paragraph at lines 14802--14806 []\T1/ptm/m/n/10 This is the same com-pu-ta-tion as for the em-pir-i-cal dis-tr i-bu-tion func-tion, and in-deed, [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] [238] [239] Underfull \hbox (badness 4429) in paragraph at lines 15583--15586 []\T1/ptm/m/n/10 an atomic nu-mer-i-cal or char-ac-ter ob-ject, pos-si-bly [][] []\T1/zi4/m/n/10 complex[][][] []\T1/ptm/m/n/10 only for [240] Underfull \hbox (badness 10000) in paragraph at lines 15689--15691 []\T1/ptm/m/n/10 This works via []\T1/zi4/m/n/10 prettyNum()[]\T1/ptm/m/n/10 , which calls []\T1/zi4/m/n/10 .format.zeros(*, [241] Underfull \hbox (badness 2035) in paragraph at lines 15762--15766 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/n/10 decimal.mark []\T1/ptm/m/n/1 0 in []\T1/zi4/m/n/10 formatC() []\T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.2.0: for use within [242] [243] [244] [245] [246] [247] [248] [249] [250] [251] Underfull \hbox (badness 2452) in paragraph at lines 16374--16378 []\T1/zi4/m/n/10 gctorture2 []\T1/ptm/m/n/10 can also be in-voked via en-vi-ron -ment vari-ables at the start of the \T1/phv/m/n/10 R \T1/ptm/m/n/10 ses- Underfull \hbox (badness 1147) in paragraph at lines 16374--16378 \T1/ptm/m/n/10 sion. []\T1/zi4/m/n/10 R_GCTORTURE []\T1/ptm/m/n/10 cor-re-spond s to the []\T1/zi4/m/n/10 step []\T1/ptm/m/n/10 ar-gu-ment, []\T1/zi4/m/n/10 R_ GCTORTURE_WAIT []\T1/ptm/m/n/10 to []\T1/zi4/m/n/10 wait[]\T1/ptm/m/n/10 , and [252] [253] [254] Underfull \hbox (badness 1092) in paragraph at lines 16547--16552 [][][]\T1/zi4/m/n/10 library.dynam[][][][]\T1/ptm/m/n/10 , or can be found af-t er the DLL has been loaded us-ing [255] [256] [257] Underfull \hbox (badness 6741) in paragraph at lines 16800--16804 \T1/ptm/m/n/10 Additionally, the list will have an ad-di-tional class, be-ing [ ]\T1/zi4/m/n/10 CRoutine[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 CallRoutine[]\T1/pt m/m/n/10 , [258] [259] [260] [261] [262] [263] [264] [265] [266] [267] [268] Underfull \vbox (badness 10000) has occurred while \output is active [269] Underfull \vbox (badness 10000) has occurred while \output is active [270] [271] [272] [273] [274] [275] [276] [277] [278] [279] Underfull \hbox (badness 1478) in paragraph at lines 18252--18255 []\T1/ptm/m/n/10 A char-ac-ter vec-tor, or an ob-ject to be con-verted to a cha r-ac-ter vec-tor [280] [281] [282] [283] Underfull \hbox (badness 10000) in paragraph at lines 18524--18526 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / Underfull \hbox (badness 2088) in paragraph at lines 18530--18539 []\T1/ptm/m/n/10 For the spec-i-fi-ca-tions of `real' ICU lo-cales, see [][]$\T 1/zi4/m/n/10 https : / / unicode-[]org . github . io / icu / [284] [285] [286] [287] [288] [289] [290] [291] [292] [293] Underfull \hbox (badness 1442) in paragraph at lines 19138--19140 []\T1/ptm/m/n/10 the choice of de-fault graph-ics de-vice launched when needed and by [][][]\T1/zi4/m/n/10 dev.new[][][][]\T1/ptm/m/n/10 : see [294] [295] [296] [297] [298] Underfull \hbox (badness 10000) in paragraph at lines 19469--19475 [299] [300] [301] [302] Underfull \hbox (badness 1248) in paragraph at lines 19714--19717 []\T1/zi4/m/n/10 is.atomic []\T1/ptm/m/n/10 is true for the [][]atomic[][][] ty pes ([]\T1/zi4/m/n/10 "logical"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "integer"[]\ T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "numeric"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 " complex"[]\T1/ptm/m/n/10 , [303] [304] [305] [306] Underfull \hbox (badness 4739) in paragraph at lines 19977--19979 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [307] [308] [309] [310] Underfull \hbox (badness 1603) in paragraph at lines 20204--20207 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] [321] [322] [323] Underfull \hbox (badness 2469) in paragraph at lines 21057--21062 []\T1/ptm/m/n/10 In late 2017 a []\T1/zi4/m/n/10 libcurl []\T1/ptm/m/n/10 in-st al-la-tion was seen di-vided into two li-braries, []\T1/zi4/m/n/10 libcurl []\T 1/ptm/m/n/10 and [324] [325] Underfull \hbox (badness 1675) in paragraph at lines 21145--21154 []\T1/ptm/m/n/10 At startup, the li-brary search path is ini-tial-ized from the en-vi-ron-ment vari-ables []\T1/zi4/m/n/10 R_LIBS[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3189) in paragraph at lines 21155--21170 []\T1/ptm/m/n/10 First, []\T1/zi4/m/n/10 .Library.site []\T1/ptm/m/n/10 is ini- tial-ized from []\T1/zi4/m/n/10 R_LIBS_SITE[]\T1/ptm/m/n/10 . If this is un-set or empty, the Underfull \hbox (badness 10000) in paragraph at lines 21205--21208 []\T1/zi4/m/n/10 LOCALAPPDATA []\T1/ptm/m/n/10 (usu-ally []\T1/zi4/m/n/10 C:\Us ers\username\AppData\Local[]\T1/ptm/m/n/10 ) on Win-dows is a hid- Underfull \hbox (badness 4752) in paragraph at lines 21205--21208 \T1/ptm/m/n/10 den di-rec-tory and may not be viewed by some soft-ware. It may be opened by [326] [327] Underfull \hbox (badness 1014) in paragraph at lines 21339--21344 []\T1/ptm/m/n/10 Normally []\T1/zi4/m/n/10 library []\T1/ptm/m/n/10 re-turns (i n-vis-i-bly) the list of at-tached pack-ages, but []\T1/zi4/m/n/10 TRUE []\T1/p tm/m/n/10 or []\T1/zi4/m/n/10 FALSE []\T1/ptm/m/n/10 if [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] [338] [339] [340] Underfull \hbox (badness 1264) in paragraph at lines 22188--22196 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [341] Underfull \hbox (badness 4441) in paragraph at lines 22222--22225 []\T1/ptm/m/n/10 Note that set-ting cat-e-gory []\T1/zi4/m/n/10 "LC_ALL" []\T1/ ptm/m/n/10 sets only cat-e-gories []\T1/zi4/m/n/10 "LC_COLLATE"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "LC_CTYPE"[]\T1/ptm/m/n/10 , [342] [343] [344] [345] [346] [347] [348] [349] [350] [351] [352] [353] Underfull \hbox (badness 5231) in paragraph at lines 23019--23021 []\T1/ptm/m/n/10 The al-go-rithm used by []\T1/zi4/m/n/10 make.unique []\T1/ptm /m/n/10 has the prop-erty that []\T1/zi4/m/n/10 make.unique(c(A, B)) == [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] [368] [369] [370] Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / zlib . net/$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m /n/10 https : / / en . wikipedia . org / wiki / Gzip$[][]\T1/ptm/m/n/10 , [][]$ \T1/zi4/m/n/10 http : / / www . bzip . org/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 24112--24118 [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Bzip2$[][]\T1/ptm /m/n/10 , [][]$\T1/zi4/m/n/10 https : / / tukaani . org / xz/$[][] \T1/ptm/m/n/ 10 and [][]$\T1/zi4/m/n/10 https : [371] [372] [373] [374] [375] [376] [377] [378] Underfull \hbox (badness 2790) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 packageStartupMessage []\T1/ptm/m/n/10 is a vari-ant whose mes -sages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24609--24612 []\T1/zi4/m/n/10 suppressPackageStartupMessages[]\T1/ptm/m/n/10 . (They are sti ll mes-sages, so can be sup-pressed by [379] [380] [381] [382] [383] Underfull \hbox (badness 1194) in paragraph at lines 24932--24935 []\T1/ptm/m/n/10 The de-fault method for []\T1/zi4/m/n/10 anyNA []\T1/ptm/m/n/1 0 han-dles atomic vec-tors with-out a class and []\T1/zi4/m/n/10 NULL[]\T1/ptm/ m/n/10 . It calls [384] [385] [386] Underfull \hbox (badness 2368) in paragraph at lines 25139--25145 []\T1/ptm/m/n/10 For an [][][]\T1/zi4/m/n/10 environment[][][] env[]\T1/ptm/m/n /10 , []\T1/zi4/m/n/10 names(env) []\T1/ptm/m/n/10 gives the names of the cor-r e-spond-ing list, i.e., [387] [388] [389] [390] [391] [392] Underfull \hbox (badness 10000) in paragraph at lines 25529--25532 []\T1/ptm/m/n/10 optional [][][]\T1/zi4/m/n/10 logical[][][] []\T1/ptm/m/n/10 e ven-tu-ally to be passed to []\T1/zi4/m/n/10 print()[]\T1/ptm/m/n/10 , used by [393] [394] [395] [396] [397] [398] [399] [400] [401] [402] Underfull \hbox (badness 10000) in paragraph at lines 26150--26152 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) []\T1/ptm/m/n/10 is equiv-a-lent to but more ef-fi-cient than []\T1/zi4/m/n/10 pkg %in% [403] [404] [405] [406] [407] [408] [409] [410] [411] [412] [413] [414] [415] Underfull \hbox (badness 1881) in paragraph at lines 27045--27048 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are Underfull \hbox (badness 6220) in paragraph at lines 27069--27071 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [416] [417] Underfull \hbox (badness 2142) in paragraph at lines 27210--27214 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][][]\T1/zi4/m/n/10 posts cript[][][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able Underfull \hbox (badness 1968) in paragraph at lines 27267--27272 []\T1/ptm/m/n/10 the com-mand used by [][][]\T1/zi4/m/n/10 postscript[][][] []\ T1/ptm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [418] [419] [420] [421] Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 []\T1/ptm/m/n/10 The URL of a Bio-con-duc-tor mir-ror for use by [][][]\T1/zi4/ m/n/10 setRepositories[][][][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 e.g. the de-fault `[]\T1/zi4/m/n/10 "https://bioconductor.org"[] \T1/ptm/m/n/10 ' or the Eu-ro-pean mir-ror Underfull \hbox (badness 10000) in paragraph at lines 27561--27567 \T1/ptm/m/n/10 `[]\T1/zi4/m/n/10 "https://bioconductor.statistik.tu-dortmund.de "[]\T1/ptm/m/n/10 '. Can be set by Underfull \hbox (badness 10000) in paragraph at lines 27574--27577 []\T1/ptm/m/n/10 default Cc: ad-dress used by [][][]\T1/zi4/m/n/10 create.post[ ][][] []\T1/ptm/m/n/10 (and hence[][][]\T1/zi4/m/n/10 bug.report[][][] []\T1/pt m/m/n/10 and Underfull \hbox (badness 2689) in paragraph at lines 27600--27602 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see [422] Underfull \hbox (badness 10000) in paragraph at lines 27642--27647 []\T1/ptm/m/n/10 Used by [][][]\T1/zi4/m/n/10 install.packages[][][] []\T1/ptm/ m/n/10 (and in-di-rectly Underfull \hbox (badness 2529) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 in-di-rectly [][][]\T1/zi4/m/n/10 update.packages[][][][]\T1/ptm /m/n/10 ) on plat-forms which sup-port bi-nary pack-ages. Pos-si- Underfull \hbox (badness 2512) in paragraph at lines 27648--27659 \T1/ptm/m/n/10 ble val-ues are []\T1/zi4/m/n/10 "never"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 "interactive" []\T1/ptm/m/n/10 (which means ask in in-ter-ac-tive u se and Underfull \hbox (badness 7203) in paragraph at lines 27660--27663 []\T1/ptm/m/n/10 default email-ing method used by [][][]\T1/zi4/m/n/10 create.p ost[][][] []\T1/ptm/m/n/10 and hence [][][]\T1/zi4/m/n/10 bug.report[][][] []\T 1/ptm/m/n/10 and [423] [424] [425] [426] [427] Underfull \vbox (badness 3803) has occurred while \output is active [428] Underfull \hbox (badness 10000) in paragraph at lines 28060--28064 \T1/ptm/m/n/10 el-e-ment []\T1/zi4/m/n/10 A[c(arrayindex.x, arrayindex.y)] = FU N(X[arrayindex.x], Y[arrayindex.y], [429] [430] Underfull \hbox (badness 10000) in paragraph at lines 28207--28210 []\T1/zi4/m/n/10 str2expression(s) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 str2la ng(s) []\T1/ptm/m/n/10 re-turn spe-cial ver-sions of []\T1/zi4/m/n/10 parse(tex t=s, [431] Underfull \hbox (badness 7925) in paragraph at lines 28288--28292 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 ve c-tor []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2expression(s) [ ]\T1/ptm/m/n/10 cor-re-sponds to Underfull \hbox (badness 1253) in paragraph at lines 28288--28292 [][][]\T1/zi4/m/n/10 parse[][][](text = s, keep.source=FALSE)[]\T1/ptm/m/n/10 , which is al-ways of type ([][][]\T1/zi4/m/n/10 typeof[][][][]\T1/ptm/m/n/10 ) and [][][]\T1/zi4/m/n/10 class[][][] Underfull \hbox (badness 2521) in paragraph at lines 28293--28302 []\T1/ptm/m/n/10 for a [][][]\T1/zi4/m/n/10 character[][][] []\T1/ptm/m/n/10 st ring []\T1/zi4/m/n/10 s[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 str2lang(s) []\T1/pt m/m/n/10 cor-re-sponds to [][][]\T1/zi4/m/n/10 parse[][][](text = s, [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] [443] [444] [445] [446] [447] Underfull \hbox (badness 2726) in paragraph at lines 29289--29292 []\T1/ptm/m/n/10 character string (or []\T1/zi4/m/n/10 NULL[]\T1/ptm/m/n/10 ) i n-di-cat-ing [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 val-ues in printed out-put, see [448] [449] [450] [451] [452] [453] [454] [455] [456] [457] [458] [459] Underfull \hbox (badness 1603) in paragraph at lines 30039--30042 []\T1/ptm/m/n/10 LAPACK and LIN-PACK are from [][]$\T1/zi4/m/n/10 https : / / w ww . netlib . org / lapack/$[][] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / www . [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] [470] [471] [472] [473] [474] Underfull \hbox (badness 1533) in paragraph at lines 31076--31079 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [475] [476] [477] Underfull \hbox (badness 1163) in paragraph at lines 31239--31250 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no []\T1/zi4/m/n/10 N A[]\T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [478] [479] [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] [499] [500] [501] [502] [503] Underfull \hbox (badness 10000) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 regexpr []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 gregexpr []\T1/p tm/m/n/10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32902--32906 []\T1/zi4/m/n/10 "(?[A-Z][a-z]+)" []\T1/ptm/m/n/10 then the po-si-tions of the matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32923--32925 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32926--32930 []\T1/ptm/m/n/10 The []\T1/zi4/m/n/10 pcre2pattern []\T1/ptm/m/n/10 or []\T1/zi 4/m/n/10 pcrepattern man []\T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m /n/10 https : / / www . pcre . org / [504] [505] Underfull \vbox (badness 10000) has occurred while \output is active [506] [507] [508] [509] [510] [511] [512] [513] Underfull \hbox (badness 1655) in paragraph at lines 33520--33522 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for []\T1/zi4/m/n/10 rle()[]\T1 /ptm/m/n/10 ; an ob-ject of class []\T1/zi4/m/n/10 "rle" []\T1/ptm/m/n/10 for [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] [527] [528] [529] [530] [531] [532] Underfull \hbox (badness 2261) in paragraph at lines 34726--34731 []\T1/ptm/m/n/10 If []\T1/zi4/m/n/10 strip.white []\T1/ptm/m/n/10 is of length 1, it ap-plies to all fields; oth-er-wise, if [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] Underfull \hbox (badness 10000) in paragraph at lines 35846--35857 \T1/zi4/m/n/10 / / docs . microsoft . com / en-[]us / cpp / c-[]language / pars ing-[]c-[]command-[]line-[]arguments ? [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] [568] [569] [570] [571] [572] [573] Underfull \hbox (badness 10000) in paragraph at lines 37377--37379 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [574] Underfull \vbox (badness 10000) has occurred while \output is active [575] [576] [577] [578] [579] [580] Underfull \hbox (badness 2913) in paragraph at lines 37797--37801 \T1/ptm/m/n/10 ber of nested \T1/phv/m/n/10 R \T1/ptm/m/n/10 ex-pres-sions cur- rently un-der eval-u-a-tion, ex-ceeds the limit set by [581] [582] [583] Underfull \hbox (badness 1072) in paragraph at lines 38043--38047 []\T1/ptm/m/n/10 On front-ends which sup-port it, the com-mands his-tory is rea d from the file spec-i-fied by Underfull \hbox (badness 10000) in paragraph at lines 38048--38052 []\T1/ptm/m/n/10 The command-line op-tion `[]\T1/zi4/m/n/10 --vanilla[]\T1/ptm/ m/n/10 ' im-plies `[]\T1/zi4/m/n/10 --no-site-file[]\T1/ptm/m/n/10 ', `[]\T1/zi 4/m/n/10 --no-init-file[]\T1/ptm/m/n/10 ', [584] Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 []\T1/ptm/m/n/10 On sys-tems with sub-architectures (mainly Win-dows), the file s `\T1/zi4/m/n/10 Renviron.site\T1/ptm/m/n/10 ' Underfull \hbox (badness 10000) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 and `\T1/zi4/m/n/10 Rprofile.site\T1/ptm/m/n/10 ' are looked for first in architecture-specific di-rec-to-ries, Underfull \hbox (badness 1320) in paragraph at lines 38088--38094 \T1/ptm/m/n/10 e.g. `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/i386/R environ.site\T1/ptm/m/n/10 '. And e.g. `\T1/zi4/m/n/10 .Renviron.i386\T1/ptm/m/ n/10 ' will be used in Underfull \hbox (badness 3009) in paragraph at lines 38103--38110 []\T1/ptm/m/n/10 On Unix ver-sions of \T1/phv/m/n/10 R \T1/ptm/m/n/10 there is also a file `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/n/10 /etc/Renviron\T1/pt m/m/n/10 ' which is read Underfull \hbox (badness 1038) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 very early in the start-up pro-cess-ing. It con-tains en-vi-ron- ment vari-ables set by \T1/phv/m/n/10 R \T1/ptm/m/n/10 in the Underfull \hbox (badness 2573) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 con-fig-ure pro-cess. Val-ues in that file can be over-rid-den i n site or user en-vi-ron-ment Underfull \hbox (badness 1917) in paragraph at lines 38103--38110 \T1/ptm/m/n/10 files: do not change `[][]\T1/ptm/m/sl/10 R_HOME[][][]\T1/zi4/m/ n/10 /etc/Renviron\T1/ptm/m/n/10 ' it-self. Note that this is dis-tinct from [585] [586] [587] Underfull \hbox (badness 2644) in paragraph at lines 38338--38342 []\T1/ptm/m/n/10 alternative to []\T1/zi4/m/n/10 exprs []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 ...[]\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [588] [589] [590] Underfull \hbox (badness 1142) in paragraph at lines 38491--38497 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the []\T1/zi4/m/n/10 fo rmat []\T1/ptm/m/n/10 meth-ods is []\T1/zi4/m/n/10 "%Y-%m-%d [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] [604] [605] [606] [607] [608] [609] [610] [611] Underfull \hbox (badness 1158) in paragraph at lines 39792--39794 []\T1/ptm/m/n/10 integer code used in []\T1/zi4/m/n/10 quantile(*, type=quantil e.type) []\T1/ptm/m/n/10 for the de-fault [612] [613] [614] [615] [616] [617] [618] [619] [620] Underfull \hbox (badness 1137) in paragraph at lines 40382--40388 []\T1/ptm/m/n/10 This ex-pands tilde (see [][]tilde ex-pan-sion[][][]) and wild -cards in file paths. For pre-cise de-tails [621] Underfull \hbox (badness 4967) in paragraph at lines 40401--40406 []\T1/ptm/m/n/10 If a file-name starts with []\T1/zi4/m/n/10 . []\T1/ptm/m/n/10 this may need to be matched ex-plic-itly: for ex-am-ple [622] [623] Underfull \hbox (badness 1616) in paragraph at lines 40521--40526 []\T1/zi4/m/n/10 system("id") []\T1/ptm/m/n/10 is much more portable on Unix-al ikes, pro-vided only the POSIX op-tions [624] [625] [626] [627] [628] [629] [630] [631] Underfull \hbox (badness 1472) in paragraph at lines 41068--41071 []\T1/ptm/m/n/10 logical. If []\T1/zi4/m/n/10 TRUE[]\T1/ptm/m/n/10 , func-tions keep their source in-clud-ing com-ments, see [632] [633] [634] [635] [636] [637] [638] [639] [640] [641] [642] [643] [644] [645] [646] Underfull \hbox (badness 10000) in paragraph at lines 41994--41998 []\T1/ptm/m/n/10 On 64-bit plat-forms []\T1/zi4/m/n/10 bin []\T1/ptm/m/n/10 can have $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., []\T1/zi4/ m/n/10 length(bin) > [647] [648] [649] [650] Underfull \hbox (badness 10000) in paragraph at lines 42245--42248 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [651] [652] [653] Underfull \hbox (badness 10000) in paragraph at lines 42429--42433 [][][]\T1/zi4/m/n/10 addTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 removeTaskCallback[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 taskCallback Manager[][][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [654] [655] [656] [657] [658] [659] [660] [661] [662] Underfull \hbox (badness 10000) in paragraph at lines 43055--43058 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [663] [664] [665] [666] [667] Underfull \vbox (badness 3803) has occurred while \output is active [668] [669] [670] [671] [672] [673] [674] [675] Underfull \hbox (badness 1990) in paragraph at lines 43977--43985 []\T1/zi4/m/n/10 try []\T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any er-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43977--43985 \T1/ptm/m/n/10 an er-ror oc-curs then the er-ror mes-sage is printed to the [][ ][]\T1/zi4/m/n/10 stderr[][][] []\T1/ptm/m/n/10 con-nec-tion un-less [676] [677] [678] [679] [680] [681] [682] [683] [684] [685] [686] [687] [688] [689] [690] Underfull \hbox (badness 2452) in paragraph at lines 44946--44952 [][][]\T1/zi4/m/n/10 file[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.acc ess[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.append[][][][]\T1/ptm/m/n /10 , [][][]\T1/zi4/m/n/10 file.copy[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/ 10 file.create[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.exists[][][][] \T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 file.info[][][][]\T1/ptm/m/n/10 , [691] [692] [693] [694] [695] [696] Underfull \hbox (badness 3668) in paragraph at lines 45344--45346 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [697] [698] Underfull \hbox (badness 2401) in paragraph at lines 45474--45478 []\T1/ptm/m/n/10 See the de-scrip-tion of [][][]\T1/zi4/m/n/10 options[][][]("w arn") []\T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [699] [700] [701] Underfull \hbox (badness 2111) in paragraph at lines 45682--45687 \T1/ptm/m/n/10 If [][][]\T1/zi4/m/n/10 names[][][](.dimnames) []\T1/ptm/m/n/10 is not empty, these are used as col-umn names. [702] [703] [704] [705] Underfull \hbox (badness 4001) in paragraph at lines 45928--45930 []\T1/ptm/m/n/10 Thomas Lum-ley (2003) \T1/ptm/m/it/10 Stan-dard non-stan-dard eval-u-a-tion rules\T1/ptm/m/n/10 . [][]$\T1/zi4/m/n/10 https : / / developer . [706] [707] [708] [709] [710] [711] Underfull \hbox (badness 5417) in paragraph at lines 46293--46297 []\T1/zi4/m/n/10 .packages() []\T1/ptm/m/n/10 re-turns the names of the cur-ren tly at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [712] Underfull \hbox (badness 10000) in paragraph at lines 46354--46358 []\T1/zi4/m/n/10 .standard_regexps []\T1/ptm/m/n/10 re-turns a list of `stan-da rd' reg-exps, in-clud-ing el-e-ments named [713]) (./compiler-pkg.tex [714] Chapter 2. [715] [716] [717] [718]) (./datasets-pkg.tex Chapter 3. [719] [720] [721] [722] [723] [724] [725] [726] [727] [728] [729] [730] [731] [732] [733] [734] [735] Underfull \hbox (badness 1097) in paragraph at lines 1037--1041 []\T1/ptm/m/n/10 MacDonell, W.R. (1902). On crim-i-nal an-thro-pom-e-try and th e iden-ti-fi-ca-tion of crim-i-nals. [736] [737] [738] [739] [740] [741] [742] [743] [744] [745] [746] [747] [748] [749] [750] [751] [752] [753] [754] [755] [756] [757] [758] [759] [760] [761] [762] [763] [764] [765] [766] [767] [768] [769] [770] [771] [772] [773] [774] [775] [776] [777] [778] [779] [780] [781] [782] [783] [784] [785] [786] [787] [788] [789] [790] [791] [792] [793] [794] [795] [796] [797] [798] [799] [800] [801]) (./grDevices-pkg.tex [802] Chapter 4. [803] [804] [805] [806] [807] Underfull \hbox (badness 2221) in paragraph at lines 282--286 []\T1/ptm/m/n/10 numeric vec-tor of length 3, []\T1/zi4/m/n/10 c(mi, ma, n.)[]\ T1/ptm/m/n/10 , with iden-ti-cal mean-ing to Underfull \hbox (badness 10000) in paragraph at lines 298--303 []\T1/ptm/m/n/10 Apart from that, [][][]\T1/zi4/m/n/10 axisTicks[][][]() []\T1/ ptm/m/n/10 just calls the C func-tion []\T1/zi4/m/n/10 CreateAtVector() []\T1/p tm/m/n/10 in Underfull \hbox (badness 1852) in paragraph at lines 298--303 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 /src/main/plot.c\T1/ptm/m/n/10 ' which is also called by the base \T1/ptm/b/n/10 graph-ics \T1/ptm/m/n/10 pack-age func-t ion [808] [809] [810] [811] [812] [813] [814] [815] [816] [817] Underfull \hbox (badness 1424) in paragraph at lines 898--900 [][][]\T1/zi4/m/n/10 NA[][][] []\T1/ptm/m/n/10 (as in-te-ger or char-ac-ter) an d []\T1/zi4/m/n/10 "NA" []\T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i-fied as [818] [819] [820] [821] Underfull \hbox (badness 5175) in paragraph at lines 1192--1194 []\T1/ptm/m/n/10 There is cur-rently no doc-u-men-ta-tion about the al-go-rithm . The source code is in [822] [823] Underfull \hbox (badness 2512) in paragraph at lines 1311--1313 []\T1/ptm/m/n/10 For the white points [][]$\T1/zi4/m/n/10 https : / / web . arc hive . org / web / 20190613001950 / http : / / efg2 . com / [824] [825] [826] [827] [828] Underfull \hbox (badness 1490) in paragraph at lines 1611--1616 \T1/ptm/m/n/10 by [][][]\T1/zi4/m/n/10 rasterImage[][][] []\T1/ptm/m/n/10 and [ ][][]\T1/zi4/m/n/10 grid.raster[][][][]\T1/ptm/m/n/10 ? Pos-si-ble val-ues []\T 1/zi4/m/n/10 "no"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "yes" []\T1/ptm/m/n/10 and Underfull \hbox (badness 3302) in paragraph at lines 1624--1628 []\T1/ptm/m/n/10 character: Does the de-vice sup-port pat-tern fills? One or mo re of [829] [830] [831] [832] [833] [834] [835] Underfull \hbox (badness 1325) in paragraph at lines 2038--2048 []\T1/zi4/m/n/10 "png48"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngmono"[]\T1/ptm/ m/n/10 , []\T1/zi4/m/n/10 "pnggray"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "pngalph a"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp16"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/1 0 "bmp16m" "bmp256"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "bmp32b"[]\T1/ptm/m/n/10 , [836] Underfull \hbox (badness 10000) in paragraph at lines 2150--2152 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [837] [838] [839] Underfull \hbox (badness 6758) in paragraph at lines 2329--2332 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [840] [841] [842] [843] [844] [845] [846] [847] [848] [849] Underfull \hbox (badness 10000) in paragraph at lines 2940--2941 [850] [851] [852] [853] [854] [855] [856] [857] [858] [859] [860] [861] Underfull \vbox (badness 3803) has occurred while \output is active [862] [863] [864] [865] Underfull \vbox (badness 3803) has occurred while \output is active [866] Underfull \hbox (badness 10000) in paragraph at lines 4016--4019 []\T1/ptm/m/n/10 For use with []\T1/zi4/m/n/10 onefile = FALSE []\T1/ptm/m/n/10 give a C in-te-ger for-mat such as [867] [868] [869] [870] [871] [872] [873] [874] [875] [876] [877] [878] Underfull \vbox (badness 3803) has occurred while \output is active [879] [880] Underfull \hbox (badness 1584) in paragraph at lines 4907--4909 []\T1/ptm/m/n/10 For type []\T1/zi4/m/n/10 "cairo"[]\T1/ptm/m/n/10 , the []\T1/ zi4/m/n/10 symbolfamily []\T1/ptm/m/n/10 ar-gu-ment can be sup-plied. See Underfull \hbox (badness 1067) in paragraph at lines 4911--4918 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [881] [882] [883] [884] Underfull \hbox (badness 1377) in paragraph at lines 5217--5222 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [885] Underfull \hbox (badness 1418) in paragraph at lines 5293--5300 \T1/ptm/m/n/10 it is one of []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\ T1/zi4/m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m /n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvet ica-Narrow"[]\T1/ptm/m/n/10 , [886] Underfull \hbox (badness 1755) in paragraph at lines 5311--5313 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [887] Underfull \hbox (badness 1377) in paragraph at lines 5422--5427 []\T1/ptm/m/n/10 Color mod-els pro-vided for back-wards com-pat-i-bil-ity are [ ]\T1/zi4/m/n/10 "rgb" []\T1/ptm/m/n/10 (which is RGB+gray) and [888] Underfull \hbox (badness 7344) in paragraph at lines 5491--5493 []\T1/ptm/m/n/10 Support for Com-puter Mod-ern fonts is based on a con-tri-bu-t ion by Brian D'Urso [889] Underfull \vbox (badness 3803) has occurred while \output is active [890] Underfull \hbox (badness 2035) in paragraph at lines 5629--5638 []\T1/ptm/m/n/10 Mappings for a num-ber of stan-dard Adobe fonts (and URW equiv -a-lents) are also pro- Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 \T1/ptm/m/n/10 vided: []\T1/zi4/m/n/10 "AvantGarde"[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 "Bookman"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Courier"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Helvetica-Na rrow"[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 5629--5638 []\T1/zi4/m/n/10 "NewCenturySchoolbook"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "Pal atino" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 "Times"[]\T1/ptm/m/n/10 ; []\T1/zi 4/m/n/10 "URWGothic"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "URWBookman"[]\T1/ptm/m /n/10 , [891] [892] Underfull \hbox (badness 10000) in paragraph at lines 5697--5699 []\T1/zi4/m/n/10 BousungEG-Light-GB []\T1/ptm/m/n/10 can be found at [][]$\T1/z i4/m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [893] [894] Underfull \hbox (badness 1546) in paragraph at lines 5841--5849 []\T1/ptm/m/n/10 arguments []\T1/zi4/m/n/10 onefile[]\T1/ptm/m/n/10 , []\T1/zi4 /m/n/10 family[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 title[]\T1/ptm/m/n/10 , []\T1 /zi4/m/n/10 fonts[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 encoding[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 bg[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 fg[]\T1/ptm/m/n/10 , [] \T1/zi4/m/n/10 width[]\T1/ptm/m/n/10 , [895] [896] [897] [898] [899] [900] [901] [902] Underfull \hbox (badness 10000) in paragraph at lines 6379--6382 []\T1/zi4/m/n/10 rgb2hsv []\T1/ptm/m/n/10 trans-forms col-ors from RGB space (r ed/green/blue) into HSV space [903] [904] Underfull \vbox (badness 3803) has occurred while \output is active [905] [906] [907] [908] [909] [910] [911] [912] [913] [914] [915] [916] Underfull \hbox (badness 1189) in paragraph at lines 7208--7210 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [917] Underfull \hbox (badness 10000) in paragraph at lines 7313--7315 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" []\T1/ptm/m/n/10 for CJ K lan-guages and [918] [919] [920] [921] [922] Underfull \hbox (badness 3780) in paragraph at lines 7627--7633 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of []\T1/zi4/m/n /10 "AvantGarde"[]\T1/ptm/m/n/10 , [923] [924] [925] [926] [927] [928]) (./graphics-pkg.tex Chapter 5. [929] [930] [931] [932] [933] [934] [935] [936] [937] [938] [939] [940] [941] [942] [943] [944] Overfull \hbox (12.71341pt too wide) in paragraph at lines 983--983 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [945] [946] [947] [948] [949] [950] Underfull \hbox (badness 4634) in paragraph at lines 1357--1360 [][][]\T1/zi4/m/n/10 boxplot.default[][][] []\T1/ptm/m/n/10 which al-ready work s nowa-days with data.frames; [][][]\T1/zi4/m/n/10 boxplot.formula[][][][]\T1/p tm/m/n/10 , [951] [952] [953] [954] [955] [956] [957] [958] [959] [960] [961] [962] [963] [964] [965] [966] [967] Underfull \hbox (badness 1728) in paragraph at lines 2335--2337 []\T1/ptm/m/n/10 a string in-di-cat-ing the x-axis style; use []\T1/zi4/m/n/10 "n" []\T1/ptm/m/n/10 to sup-press and see also [968] Underfull \hbox (badness 1009) in paragraph at lines 2428--2435 \T1/ptm/m/n/10 be in as-cend-ing or-der. (The rest of this de-scrip-tion does n ot ap-ply to [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] [983] [984] [985] [986] [987] [988] [989] [990] [991] Underfull \vbox (badness 10000) has occurred while \output is active [992] Underfull \vbox (badness 10000) has occurred while \output is active [993] [994] [995] [996] [997] [998] [999] [1000] [1001] [1002] [1003] [1004] Underfull \hbox (badness 3229) in paragraph at lines 4652--4657 []\T1/ptm/m/n/10 a char-ac-ter string in-di-cat-ing if log-a-rith-mic axes are to be used, see [1005] [1006] [1007] [1008] [1009] Underfull \hbox (badness 1107) in paragraph at lines 5081--5087 []\T1/ptm/m/n/10 is []\T1/zi4/m/n/10 par("cin")/par("pin") []\T1/ptm/m/n/10 sca led to user co-or-di-nates. Note that []\T1/zi4/m/n/10 c([][]strwidth[][][](ch) , [1010] [1011] Underfull \hbox (badness 10000) in paragraph at lines 5210--5213 [1012 ] Underfull \hbox (badness 10000) in paragraph at lines 5271--5273 Underfull \vbox (badness 10000) has occurred while \output is active [1013] [1014 ] [1015] [1016] Underfull \vbox (badness 3803) has occurred while \output is active [1017] [1018] [1019] [1020] [1021] [1022] [1023]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5943 \aliasA{plot}{plot.default}{plot} [1024] [1025] [1026] [1027] [1028] [1029] [1030] [1031] [1032] [1033] [1034] [1035] [1036] [1037] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6848--6849 [][] [1038 ] [1039] Underfull \vbox (badness 3803) has occurred while \output is active [1040] [1041] [1042] [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] [1064] [1065] [1066] [1067] [1068] [1069] [1070] [1071] [1072] Underfull \hbox (badness 4954) in paragraph at lines 8936--8938 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color []\T1/zi4/m /n/10 par(c("font.sub", Underfull \hbox (badness 1019) in paragraph at lines 8938--8940 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color []\T1/zi4/m/n/10 par (c("font.lab", "cex.lab", [1073]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.9018 \HeaderA{units}{Graphical Units}{units} [1074] [1075] [1076] [1077]) (./grid-pkg.tex [1078] Chapter 6. [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 2680) in paragraph at lines 550--553 []\T1/ptm/m/n/10 Note that []\T1/zi4/m/n/10 preDrawDetails []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 postDrawDetails []\T1/ptm/m/n/10 are also called in the cal-c u-la-tion of [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] Underfull \hbox (badness 4279) in paragraph at lines 1187--1196 [][][]\T1/ptm/m/n/10 Grid[][][], [][][]\T1/zi4/m/n/10 pushViewport[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 popViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/ zi4/m/n/10 downViewport[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 seekViewpo rt[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 upViewport[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 unit[][][][]\T1/ptm/m/n/10 , [1099] [1100] [1101] [1102] [1103] [1104] [1105] [1106] [1107] [1108] [1109] [1110] [1111] [1112] [1113] [1114] [1115] [1116] [1117] [1118] [1119] [1120] [1121] [1122] [1123] [1124] [1125] [1126] [1127] [1128] [1129] Underfull \hbox (badness 10000) in paragraph at lines 3041--3043 []\T1/ptm/m/n/10 A func-tion that re-turns an affine trans-for-ma-tion ma-trix; see [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] Underfull \vbox (badness 10000) has occurred while \output is active [1146] [1147] [1148] [1149] [1150] [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] Underfull \hbox (badness 1067) in paragraph at lines 4761--4764 []\T1/ptm/m/n/10 Both func-tions cre-ate a seg-ments grob (a graph-i-cal ob-jec t de-scrib-ing seg-ments), but only [1160] [1161] [1162] [1163] [1164] [1165] Underfull \hbox (badness 7256) in paragraph at lines 5112--5114 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1166] [1167] [1168] [1169] [1170] [1171] [1172] Underfull \hbox (badness 2142) in paragraph at lines 5561--5565 []\T1/ptm/m/n/10 ob-jects. For []\T1/zi4/m/n/10 gridGTreeCoords []\T1/ptm/m/n/1 0 a list of ei-ther []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 or [1173] [1174] Underfull \hbox (badness 4699) in paragraph at lines 5632--5637 []\T1/ptm/m/n/10 Either a []\T1/zi4/m/n/10 "GridGrobCoords" []\T1/ptm/m/n/10 ob -ject (a list of lists with com-po-nents []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 an d []\T1/zi4/m/n/10 y[]\T1/ptm/m/n/10 ) or a [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] [1185] [1186] [1187] [1188] [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] [1197] [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206]) (./methods-pkg.tex Chapter 7. [1207] [1208] [1209] [1210] [1211] [1212] [1213] [1214] Underfull \vbox (badness 10000) has occurred while \output is active [1215] Underfull \vbox (badness 10000) has occurred while \output is active [1216] [1217] [1218] [1219] [1220] [1221] [1222] [1223] [1224] [1225] Underfull \hbox (badness 2237) in paragraph at lines 1385--1387 []\T1/ptm/m/n/10 The class []\T1/zi4/m/n/10 "className" []\T1/ptm/m/n/10 ex-ten ds []\T1/zi4/m/n/10 "character" []\T1/ptm/m/n/10 and has a slot []\T1/zi4/m/n/1 0 "package"[]\T1/ptm/m/n/10 , also of class [1226] [1227] [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 10000) in paragraph at lines 1981--1986 []\T1/ptm/m/n/10 The ar-gu-ment to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m/n/ 10 can be an ob-ject of class Underfull \hbox (badness 1038) in paragraph at lines 1981--1986 \T1/ptm/m/n/10 file name is passed to []\T1/zi4/m/n/10 insertSource []\T1/ptm/m /n/10 it calls []\T1/zi4/m/n/10 evalSource []\T1/ptm/m/n/10 to ob-tain the [1235] [1236] [1237] Underfull \hbox (badness 2213) in paragraph at lines 2213--2218 []\T1/ptm/m/n/10 To re-strict the search to classes in a par-tic-u-lar pack-age , use []\T1/zi4/m/n/10 where = [1238] [1239] [1240] [1241] [1242] Underfull \hbox (badness 10000) in paragraph at lines 2573--2576 []\T1/ptm/m/n/10 As you might ex-pect [][][]\T1/zi4/m/n/10 setGeneric[][][] []\ T1/ptm/m/n/10 and [][][]\T1/zi4/m/n/10 setGroupGeneric[][][] []\T1/ptm/m/n/10 c re-ate ob-jects of class [1243] [1244] Underfull \hbox (badness 1132) in paragraph at lines 2713--2717 []\T1/ptm/m/n/10 In []\T1/zi4/m/n/10 getGenerics[]\T1/ptm/m/n/10 , if []\T1/zi4 /m/n/10 TRUE[]\T1/ptm/m/n/10 , the []\T1/zi4/m/n/10 package []\T1/ptm/m/n/10 sl ot of the re-turned re-sult is in [1245] Underfull \hbox (badness 1033) in paragraph at lines 2745--2750 \T1/ptm/m/n/10 In ad-di-tion, []\T1/zi4/m/n/10 removeGeneric []\T1/ptm/m/n/10 r e-moves the func-tion it-self; []\T1/zi4/m/n/10 removeMethods []\T1/ptm/m/n/10 re-stores the [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1102) in paragraph at lines 3302--3304 []\T1/zi4/m/n/10 getPackageName []\T1/ptm/m/n/10 re-turns the character-string name of the pack-age (with-out the ex-tra-ne-ous [1253] [1254] [1255] [1256] [1257] [1258] Underfull \hbox (badness 10000) in paragraph at lines 3641--3650 []\T1/ptm/m/n/10 The [1259] Underfull \hbox (badness 10000) in paragraph at lines 3761--3762 [] \T1/zi4/m/n/10 Pos <- setClass("Pos", slots = c(latitude = "numeric", longit ude = "numeric", [1260] Underfull \hbox (badness 10000) in paragraph at lines 3845--3846 []\T1/zi4/m/n/10 Currency <- setClass("Currency", slots = c(unit = "character") , contains = [1261] [1262] [1263] [1264] [1265] [1266] [1267] [1268] [1269] [1270] Underfull \hbox (badness 1769) in paragraph at lines 4476--4482 []\T1/ptm/m/n/10 class [][][]\T1/zi4/m/n/10 MethodsList[][][] []\T1/ptm/m/n/10 for the ob-jects defin-ing sets of meth-ods as-so-ci-ated with a par-tic-u-lar Underfull \hbox (badness 1939) in paragraph at lines 4476--4482 []\T1/zi4/m/n/10 MethodDefinition[]\T1/ptm/m/n/10 , or an ex-ten-sion. Class [] [][]\T1/zi4/m/n/10 MethodWithNext[][][] []\T1/ptm/m/n/10 for an ex-ten-sion use d by [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] [1279] [1280] Underfull \vbox (badness 10000) has occurred while \output is active [1281] [1282] [1283] Underfull \hbox (badness 4036) in paragraph at lines 5445--5448 []\T1/ptm/m/n/10 Object of class []\T1/zi4/m/n/10 "PossibleMethod" []\T1/ptm/m/ n/10 the method to use in re-sponse to a [1284] [1285] Underfull \hbox (badness 3803) in paragraph at lines 5520--5522 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1286] [1287] [1288] Underfull \hbox (badness 1087) in paragraph at lines 5752--5757 []\T1/ptm/m/n/10 In ad-di-tion, the cur-rently avail-able gener-ics with meth-o ds for this class are found (us-ing [1289] [1290] [1291] [1292] [1293] [1294] [1295] [1296] [1297] Underfull \hbox (badness 1675) in paragraph at lines 6459--6465 []\T1/ptm/m/n/10 can be con-verted ex-plic-itly as []\T1/zi4/m/n/10 externalRef Method(f)[]\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1298] [1299] [1300] [1301] Underfull \vbox (badness 10000) has occurred while \output is active [1302] [1303] [1304]pdfTeX warning (ext4): destination with the same identifier (name{ Rfn.S4}) has been already used, duplicate ignored \relax l.6981 \aliasA{S4}{S3Part}{S4} [1305] [1306] [1307]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7237 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7239 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7240 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7242 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7243 \aliasA{Summary}{S4groupGeneric}{Summary} [1308] Underfull \hbox (badness 2050) in paragraph at lines 7304--7308 []\T1/ptm/m/n/10 The mem-bers of the group de-fined by a par-tic-u-lar generic can be ob-tained by call-ing [1309] [1310] [1311] Underfull \hbox (badness 1286) in paragraph at lines 7492--7494 []\T1/ptm/m/n/10 for []\T1/zi4/m/n/10 .selectSuperClasses() []\T1/ptm/m/n/10 on ly, a [][][]\T1/zi4/m/n/10 list[][][] []\T1/ptm/m/n/10 of class ex-ten-sions, t yp-i-cally [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] [1329] [1330] [1331] [1332] [1333] [1334] [1335] [1336] [1337] [1338] Underfull \vbox (badness 10000) has occurred while \output is active [1339] [1340] [1341] [1342] [1343] [1344] [1345] [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] Underfull \hbox (badness 1852) in paragraph at lines 10572--10576 []\T1/ptm/m/n/10 Each of the classes ex-tends the cor-re-spond-ing un-traced cl ass, from the data part; e.g., [1354] [1355] [1356] [1357]) (./parallel-pkg.tex [1358] Chapter 8. Underfull \hbox (badness 5490) in paragraph at lines 14--16 []\T1/ptm/m/n/10 There is sup-port for mul-ti-ple RNG streams with the `[]\T1/z i4/m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"[]\T1/ptm/m/n/10 ' [][] RNG[][][]: see [1359] [1360] [1361] [1362] [1363] Underfull \hbox (badness 1320) in paragraph at lines 301--304 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1364] [1365] [1366] [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] Underfull \hbox (badness 3386) in paragraph at lines 1402--1405 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by []\T1/zi4/m/n/10 .Random.seed []\T1/ptm/m/n/10 when the [1381] [1382] [1383]) (./splines-pkg.tex [1384] Chapter 9. Underfull \hbox (badness 10000) in paragraph at lines 22--24 []\T1/ptm/m/n/10 Douglas M. Bates \T1/zi4/m/n/10 \T1/ptm/ m/n/10 and William N. Ven-ables [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] [1397] [1398] [1399] [1400]) (./stats-pkg.tex Chapter 10. [1401] [1402] [1403] [1404] [1405] [1406] [1407] [1408] [1409] [1410] [1411] [1412] [1413] [1414] Underfull \hbox (badness 1412) in paragraph at lines 887--889 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from []\T1/zi4/m/n/10 l m []\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 aov[]\T1/ptm/m/n/10 , or a for-mula for [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] Underfull \hbox (badness 2503) in paragraph at lines 1369--1372 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] [1454] [1455] [1456] Underfull \hbox (badness 2503) in paragraph at lines 3530--3533 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1457] [1458] [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] [1469] [1470] [1471] [1472] [1473] [1474] [1475] [1476] Underfull \hbox (badness 3989) in paragraph at lines 4787--4794 []\T1/ptm/m/n/10 a nu-meric vec-tor of length 2, equal to say $\OT1/cmr/m/n/10 (\OML/cmm/m/it/10 g[]; g[]\OT1/cmr/m/n/10 )$\T1/ptm/m/n/10 , where $\OML/cmm/m/ it/10 g[] \OT1/cmr/m/n/10 = [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] Underfull \hbox (badness 2556) in paragraph at lines 5424--5427 []\T1/ptm/m/n/10 character; par-tially matched to []\T1/zi4/m/n/10 "circular"[] \T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "open"[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 "fi lter"[]\T1/ptm/m/n/10 . For [1487] [1488] [1489] [1490] [1491] [1492] [1493] Underfull \hbox (badness 2503) in paragraph at lines 5838--5842 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] [1502] [1503] [1504] [1505] [1506] Underfull \hbox (badness 7081) in paragraph at lines 6632--6635 []\T1/ptm/m/n/10 Objects of class []\T1/zi4/m/n/10 "hclust" []\T1/ptm/m/n/10 ca n be con-verted to class []\T1/zi4/m/n/10 "dendrogram" []\T1/ptm/m/n/10 us-ing method Underfull \hbox (badness 10000) in paragraph at lines 6636--6638 []\T1/zi4/m/n/10 rev.dendrogram []\T1/ptm/m/n/10 sim-ply re-turns the den-dro-g ram []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 with re-versed nodes, see also [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] Underfull \hbox (badness 10000) in paragraph at lines 7493--7496 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][][] \T1/zi4/m/n/10 dist[][][]()[]\T1/ptm/m/n/10 , the [1520] [1521] [1522] [1523] [1524] [1525] [1526] [1527] [1528] [1529] [1530] [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] Underfull \vbox (badness 10000) has occurred while \output is active [1542] [1543] [1544] [1545] [1546] Underfull \hbox (badness 2626) in paragraph at lines 9172--9175 []\T1/ptm/m/n/10 Either []\T1/zi4/m/n/10 "convolution" []\T1/ptm/m/n/10 or []\T 1/zi4/m/n/10 "recursive" []\T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1547] [1548] Underfull \hbox (badness 2503) in paragraph at lines 9279--9283 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1549] [1550] [1551] [1552] [1553] [1554] [1555] [1556] [1557] [1558] [1559] [1560] [1561] [1562] [1563] [1564] [1565] [1566] [1567] [1568] [1569] Underfull \hbox (badness 4518) in paragraph at lines 10631--10636 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1570] [1571] [1572] [1573] [1574] Underfull \hbox (badness 2142) in paragraph at lines 10992--10995 []\T1/ptm/m/n/10 positive con-ver-gence tol-er-ance $\OML/cmm/m/it/10 ^^O$\T1/p tm/m/n/10 ; the it-er-a-tions con-verge when $\OMS/cmsy/m/n/10 j\OML/cmm/m/it/1 0 dev \OMS/cmsy/m/n/10 ^^@ Underfull \hbox (badness 1253) in paragraph at lines 11011--11014 []\T1/ptm/m/n/10 When []\T1/zi4/m/n/10 trace []\T1/ptm/m/n/10 is true, calls to [][][]\T1/zi4/m/n/10 cat[][][] []\T1/ptm/m/n/10 pro-duce the out-put for each IWLS it-er-a-tion. Hence, [1575] Underfull \hbox (badness 1708) in paragraph at lines 11073--11077 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1576] [1577] [1578] [1579] [1580] [1581] Underfull \hbox (badness 1694) in paragraph at lines 11469--11472 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1582] [1583] [1584] [1585] [1586] [1587] [1588] [1589]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11950 \aliasA{hat}{influence.measures}{hat} [1590] [1591] Underfull \hbox (badness 1484) in paragraph at lines 12092--12094 []\T1/ptm/m/n/10 The func-tion []\T1/zi4/m/n/10 hat() []\T1/ptm/m/n/10 ex-ists mainly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 10000) in paragraph at lines 12694--12696 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][][]\T1/zi4/m/n/10 solve.de fault[][][] []\T1/ptm/m/n/10 when []\T1/zi4/m/n/10 SSinit = [1602] [1603] [1604] [1605] [1606] [1607] Underfull \hbox (badness 2894) in paragraph at lines 13030--13034 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1608] [1609] [1610] [1611] [1612] [1613] Underfull \hbox (badness 1496) in paragraph at lines 13444--13450 []\T1/ptm/m/n/10 Gunar Schröer and Di-et-rich Tren-kler (1995). Ex-act and Ran- dom-iza-tion Dis-tri-bu-tions of [1614] [1615] [1616] [1617] [1618] [1619] [1620] Underfull \hbox (badness 4518) in paragraph at lines 13842--13847 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] Underfull \hbox (badness 4518) in paragraph at lines 14503--14508 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1631] [1632] Underfull \hbox (badness 6412) in paragraph at lines 14641--14645 []\T1/ptm/m/n/10 Only for the (de-fault) case []\T1/zi4/m/n/10 (surface = "inte rpolate", statistics = Underfull \hbox (badness 1199) in paragraph at lines 14648--14650 []\T1/ptm/m/n/10 the num-ber of it-er-a-tions used in ro-bust fit-ting, i.e. on ly if []\T1/zi4/m/n/10 family []\T1/ptm/m/n/10 is [1633] [1634] [1635] [1636] [1637] [1638] [1639] [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] Underfull \hbox (badness 2503) in paragraph at lines 15724--15728 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1651] [1652] Underfull \vbox (badness 10000) has occurred while \output is active [1653] [1654] [1655] [1656] [1657] [1658] [1659] Underfull \hbox (badness 10000) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.extract(m, "offset") []\T1/ptm/m/n/10 and []\T1/zi4/m/n/ 10 model.extract(m, "response") []\T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16237--16243 []\T1/zi4/m/n/10 model.offset(m) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 model.re sponse(m) []\T1/ptm/m/n/10 re-spec-tively. []\T1/zi4/m/n/10 model.offset []\T1/ ptm/m/n/10 sums any terms [1660] [1661] [1662] [1663] [1664] [1665] [1666] [1667] [1668] [1669] [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] [1684] [1685] Underfull \hbox (badness 1158) in paragraph at lines 17888--17891 []\T1/ptm/m/n/10 the ex-pres-sion that was passed to []\T1/zi4/m/n/10 nls []\T1 /ptm/m/n/10 as the data ar-gu-ment. The ac- [1686] [1687] Underfull \vbox (badness 3803) has occurred while \output is active [1688] Underfull \vbox (badness 10000) has occurred while \output is active [1689] Underfull \vbox (badness 10000) has occurred while \output is active [1690] [1691] [1692] [1693] [1694] [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 1377) in paragraph at lines 18915--18920 []\T1/ptm/m/n/10 A vec-tor of scal-ing val-ues for the pa-ram-e-ters. Op-ti-miz a-tion is per-formed on Underfull \hbox (badness 1735) in paragraph at lines 18920--18923 []\T1/ptm/m/n/10 A vec-tor of step sizes for the finite-difference ap-prox-i-ma -tion to the gra-di-ent, on Underfull \hbox (badness 2343) in paragraph at lines 18933--18937 []\T1/ptm/m/n/10 Relative con-ver-gence tol-er-ance. The al-go-rithm stops if i t is un-able to re-duce Underfull \hbox (badness 3471) in paragraph at lines 18933--18937 \T1/ptm/m/n/10 the value by a fac-tor of []\T1/zi4/m/n/10 reltol * (abs(val) + reltol) []\T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18941--18945 []\T1/ptm/m/n/10 The fre-quency of re-ports for the []\T1/zi4/m/n/10 "BFGS"[]\T 1/ptm/m/n/10 , []\T1/zi4/m/n/10 "L-BFGS-B" []\T1/ptm/m/n/10 and []\T1/zi4/m/n/1 0 "SANN" []\T1/ptm/m/n/10 meth-ods if [1704] [1705] [1706] Underfull \vbox (badness 10000) has occurred while \output is active [1707] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19166--19166 []\T1/zi4/m/n/9 ## 1-D minimization: "Brent" or optimize() being preferred.. b ut NM may be ok and "unavoidable",[] Overfull \hbox (3.75941pt too wide) in paragraph at lines 19169--19169 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 1337) in paragraph at lines 19628--19631 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] Underfull \hbox (badness 10000) in paragraph at lines 20099--20105 \T1/zi4/m/n/10 legend = "Cook\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 s distance", lty = cook.lty, col = cook.col, text.col [1724] [1725] [1726] [1727] [1728] Underfull \hbox (badness 1194) in paragraph at lines 20429--20432 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1729] [1730] [1731] [1732] [1733] [1734] Underfull \hbox (badness 2503) in paragraph at lines 20808--20811 []\T1/ptm/m/n/10 indicates the al-ter-na-tive hy-poth-e-sis and must be one of []\T1/zi4/m/n/10 "two.sided"[]\T1/ptm/m/n/10 , [1735] Underfull \hbox (badness 3919) in paragraph at lines 20835--20837 []\T1/ptm/m/n/10 the char-ac-ter string []\T1/zi4/m/n/10 "Exact Poisson test" [ ]\T1/ptm/m/n/10 or []\T1/zi4/m/n/10 "Comparison of Poisson [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] Underfull \hbox (badness 10000) in paragraph at lines 21913--21919 []\T1/ptm/m/n/10 For time-series pre-dic-tion, [][][]\T1/zi4/m/n/10 predict.ar[ ][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/n/10 predict.Arima[][][][]\T1/ptm/m/n/1 0 , [][][]\T1/zi4/m/n/10 predict.arima0[][][][]\T1/ptm/m/n/10 , [1754] [1755] [1756] [1757] [1758] [1759] [1760] [1761] [1762] [1763] [1764] [1765] [1766] [1767] [1768] [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] Underfull \hbox (badness 1337) in paragraph at lines 23270--23276 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1777] [1778] [1779] [1780] [1781] [1782] [1783] Underfull \hbox (badness 1436) in paragraph at lines 23695--23698 \T1/ptm/m/n/10 per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-sions up t o 4.0.x, this had been set to []\T1/zi4/m/n/10 max(2, [1784] Underfull \hbox (badness 10000) in paragraph at lines 23836--23837 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1785] [1786] [1787] [1788] [1789] [1790] [1791] [1792] [1793] [1794] [1795] [1796] [1797] [1798] [1799] [1800] Underfull \hbox (badness 1824) in paragraph at lines 24808--24814 []\T1/ptm/m/n/10 Here, all the NAs in []\T1/zi4/m/n/10 x []\T1/ptm/m/n/10 are f irst re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24808--24814 \T1/ptm/m/n/10 nat-ing $\OMS/cmsy/m/n/10 ^^F\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 where $\OML/cmm/m/it/10 B$ \T1/ptm/m/n/10 is a ``Big'' num-ber (with $\OT1/cmr/ m/n/10 2\OML/cmm/m/it/10 B < M\OMS/cmsy/m/n/10 ^^C$\T1/ptm/m/n/10 , where [1801] Underfull \hbox (badness 10000) in paragraph at lines 24829--24832 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult []\T1/zi4/m/n/10 y = r unmed(x, k) []\T1/ptm/m/n/10 sim-ply has []\T1/zi4/m/n/10 y[j] = [1802] Underfull \vbox (badness 3803) has occurred while \output is active [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] Underfull \hbox (badness 2165) in paragraph at lines 25410--25415 []\T1/ptm/m/n/10 Each of the fol-low-ing are []\T1/zi4/m/n/10 "selfStart" []\T1 /ptm/m/n/10 mod-els (with ex-am-ples) [][][]\T1/zi4/m/n/10 SSasymp[][][][]\T1/p tm/m/n/10 , [][][]\T1/zi4/m/n/10 SSasympOff[][][][]\T1/ptm/m/n/10 , [1811] [1812] [1813] [1814] Underfull \hbox (badness 1867) in paragraph at lines 25619--25621 []\T1/ptm/m/n/10 potentially fur-ther ar-gu-ments passed to and from meth-ods. Passed to Underfull \hbox (badness 10000) in paragraph at lines 25634--25638 []\T1/ptm/m/n/10 where []\T1/zi4/m/n/10 NN <- [][]nobs[][][](object, use.fallba ck = use.fallback) []\T1/ptm/m/n/10 and []\T1/zi4/m/n/10 PP <- [1815] [1816] [1817] [1818] [1819] [1820] [1821] [1822] [1823] [1824] [1825] [1826] [1827] [1828] [1829] [1830] [1831] [1832] [1833] [1834] [1835] [1836] [1837] [1838] [1839] Underfull \vbox (badness 10000) has occurred while \output is active [1840] [1841] Underfull \hbox (badness 3514) in paragraph at lines 27282--27287 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1842] [1843] [1844] [1845] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27516--27516 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] Underfull \hbox (badness 3514) in paragraph at lines 27552--27558 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1846] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27609--27609 []\T1/zi4/m/n/9 fmX1 <- nls(conc ~ SSbiexp(time, A1, lrc1, A2, lrc2), data = d atN, control = list(scaleOffset=1))[] Overfull \hbox (11.22874pt too wide) in paragraph at lines 27611--27611 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1847] [1848] [1849] Underfull \hbox (badness 3514) in paragraph at lines 27785--27790 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1850] [1851] Underfull \hbox (badness 3514) in paragraph at lines 27872--27877 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1852] Underfull \hbox (badness 3514) in paragraph at lines 27937--27942 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1853] [1854] Underfull \hbox (badness 3514) in paragraph at lines 28031--28036 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 inpu t[]\T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1855] [1856] Underfull \hbox (badness 6691) in paragraph at lines 28123--28128 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as []\T1/zi4/m/n/10 x[]\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1857] [1858] [1859] [1860] [1861] [1862] [1863] [1864] Underfull \hbox (badness 4024) in paragraph at lines 28614--28617 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1865] [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] Underfull \hbox (badness 5431) in paragraph at lines 29220--29222 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1875] [1876] [1877] Underfull \hbox (badness 5431) in paragraph at lines 29430--29433 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above []\T1 /zi4/m/n/10 cov.unscaled[]\T1/ptm/m/n/10 , if [1878] [1879] [1880] [1881] [1882] [1883] Underfull \hbox (badness 1337) in paragraph at lines 29745--29749 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1884] [1885] [1886] [1887] [1888] Underfull \hbox (badness 1616) in paragraph at lines 30057--30060 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1889] [1890] [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] [1900] [1901] [1902] [1903] [1904] [1905] [1906] [1907] Underfull \hbox (badness 3557) in paragraph at lines 31192--31196 []\T1/ptm/m/n/10 Setting []\T1/zi4/m/n/10 extendInt []\T1/ptm/m/n/10 to a non-[ ]\T1/zi4/m/n/10 "no" []\T1/ptm/m/n/10 string, means search-ing for the cor-rect []\T1/zi4/m/n/10 interval = [1908] [1909] [1910] Underfull \vbox (badness 10000) has occurred while \output is active [1911] [1912] [1913] Underfull \hbox (badness 1337) in paragraph at lines 31556--31560 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1914] [1915] [1916] [1917] [1918] [1919] [1920] [1921] [1922] Underfull \hbox (badness 1337) in paragraph at lines 32085--32089 []\T1/ptm/m/n/10 a char-ac-ter string spec-i-fy-ing the al-ter-na-tive hy-poth- e-sis, must be one of [1923] [1924] [1925] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32292--32292 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1926] [1927] [1928] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32453--32453 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1929] [1930] [1931] [1932] [1933]) (./stats4-pkg.tex [1934] Chapter 11. [1935] [1936] [1937] Underfull \vbox (badness 10000) has occurred while \output is active [1938] Underfull \vbox (badness 10000) has occurred while \output is active [1939] [1940] [1941] [1942]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.show.Rdash.methods}) has been already used, duplicate ignored \relax l.503 ...Package \pkg{stats4}}{show.Rdash.methods} [1943] [1944] [1945]) (./tcltk-pkg.tex [1946] Chapter 12. [1947] [1948] [1949] [1950] [1951] [1952] [1953] Underfull \vbox (badness 10000) has occurred while \output is active [1954] Underfull \vbox (badness 10000) has occurred while \output is active [1955] Underfull \hbox (badness 1546) in paragraph at lines 666--673 []\T1/zi4/m/n/10 tcl []\T1/ptm/m/n/10 pro-vides a generic in-ter-face to call-i ng any Tk or Tcl com-mand by sim-ply run-ning [1956] [1957] [1958] [1959] [1960] Underfull \vbox (badness 10000) has occurred while \output is active [1961] [1962] [1963] [1964] [1965] [1966] [1967] [1968]) (./tools-pkg.tex Chapter 13. [1969] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1970] Underfull \hbox (badness 3039) in paragraph at lines 167--170 []\T1/zi4/m/n/10 assertWarning() []\T1/ptm/m/n/10 as-serts that a warn-ing will be sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1971] [1972] Underfull \hbox (badness 1308) in paragraph at lines 288--301 []\T1/ptm/m/n/10 At a min-i-mum, the en-vi-ron-ment should con-tain rou-tines t o ren-der each of the 12 types Underfull \hbox (badness 4967) in paragraph at lines 288--301 \T1/ptm/m/n/10 of bib-li-o-graphic en-try sup-ported by [][][]\T1/zi4/m/n/10 bi bentry[][][] []\T1/ptm/m/n/10 as well as sev-eral other rou-tines de- Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatIncollection[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatIn Proceedings[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatManual[]\T1/ptm/m/n/10 , [ ]\T1/zi4/m/n/10 formatMastersthesis[]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 288--301 []\T1/zi4/m/n/10 formatMisc[]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatPhdthesis[ ]\T1/ptm/m/n/10 , []\T1/zi4/m/n/10 formatProceedings[]\T1/ptm/m/n/10 , []\T1/zi 4/m/n/10 formatTechreport []\T1/ptm/m/n/10 and [1973] [1974] Underfull \hbox (badness 3039) in paragraph at lines 392--394 []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 or char-ac-ter; name of vi-gnette en-gin e to use. Over-rides any [1975] Underfull \hbox (badness 1142) in paragraph at lines 463--467 \T1/ptm/m/n/10 If given, vi-gnette source files are by de-fault looked for in s ub-di-rec-tory [1976] [1977] [1978] [1979] [1980] [1981] [1982] [1983] [1984] [1985] [1986] [1987] Underfull \hbox (badness 1014) in paragraph at lines 1174--1176 []\T1/ptm/m/n/10 a log-i-cal in-di-cat-ing whether to also sum-ma-rize the re-v erse de-pen-den-cies Underfull \hbox (badness 7238) in paragraph at lines 1180--1182 []\T1/ptm/m/n/10 a char-ac-ter string giv-ing the path to the di-rec-tory of a pre-vi-ous [1988] Underfull \hbox (badness 10000) in paragraph at lines 1217--1220 []\T1/ptm/m/n/10 Results and tim-ings can con-ve-niently be sum-ma-rized us-ing Overfull \hbox (15.52087pt too wide) in paragraph at lines 1217--1220 []\T1/zi4/m/n/10 summarize_check_packages_in_dir_results []\T1/ptm/m/n/10 and [ ]\T1/zi4/m/n/10 summarize_check_packages_in_dir_timings[]\T1/ptm/m/n/10 , [1989] [1990] [1991] [1992] [1993] Underfull \hbox (badness 2293) in paragraph at lines 1569--1571 []\T1/zi4/m/n/10 CRAN_memtest_notes() []\T1/ptm/m/n/10 is now dep-re-cated, wit h its func-tion-al-ity in-te-grated into that of [1994] [1995] Underfull \hbox (badness 4096) in paragraph at lines 1707--1715 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string Underfull \hbox (badness 1082) in paragraph at lines 1717--1719 []\T1/ptm/m/n/10 a char-ac-ter vec-tor of \T1/phv/m/n/10 R \T1/ptm/m/n/10 li-br ary trees, or []\T1/zi4/m/n/10 NULL []\T1/ptm/m/n/10 for all known trees (see [1996] [1997] [1998] [1999]pdfTeX warning (ext4): destination with the same ide ntifier (name{Rfn.GSC}) has been already used, duplicate ignored \relax l.1919 \aliasA{GSC}{find\_gs\_cmd}{GSC} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.R.Rul.GSCMD}) has been already used, duplicate ig nored \relax l.1920 ...sA{R\_GSCMD}{find\_gs\_cmd}{R.Rul.GSCMD} [2000] [2001] [2002] [2003] [2004] Overfull \hbox (17.27782pt too wide) in paragraph at lines 2222--2222 []\T1/zi4/m/n/9 writeLines(paste0("\\newcommand{\\logo}{\\if{html}{\\figure{Rl ogo.svg}{options: width=100}",[] [2005] [2006] [2007] Underfull \hbox (badness 4096) in paragraph at lines 2391--2399 \T1/zi4/m/n/10 "Imports", "LinkingTo", "Suggests", "Enhances")[]\T1/ptm/m/n/10 . Char-ac-ter string [2008] [2009] [2010] [2011] [2012] [2013] [2014] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2886. [2015] [2016] [2017] [2018] [2019] Underfull \hbox (badness 1424) in paragraph at lines 3188--3190 []\T1/zi4/m/it/10 NULL []\T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec -tor of links, as re-turned by [2020] [2021] [2022] [2023] [2024] [2025] [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2031] [2032] Underfull \hbox (badness 10000) in paragraph at lines 4029--4032 []\T1/ptm/m/n/10 Where sup-ported ([]\T1/zi4/m/it/10 texi2dvi []\T1/ptm/m/n/10 5.0 and later; []\T1/zi4/m/it/10 texify.exe []\T1/ptm/m/n/10 from MiK-TeX), op- tion [2033] [2034] Underfull \hbox (badness 1137) in paragraph at lines 4131--4133 []\T1/ptm/m/n/10 a ma-trix spec-i-fy-ing all pack-ages in-stalled on the lo-cal sys-tem, as from [2035] [2036] [2037] [2038] [2039] Underfull \hbox (badness 1796) in paragraph at lines 4439--4444 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over [] \T1/zi4/m/it/10 write_PACKAGES []\T1/ptm/m/n/10 in the []\T1/zi4/m/it/10 type = = [2040] Underfull \hbox (badness 4699) in paragraph at lines 4489--4493 []\T1/ptm/m/n/10 a string, by de-fault empty, of op-tions to []\T1/zi4/m/it/10 msgmerge []\T1/ptm/m/n/10 in ad-di-tion to Underfull \hbox (badness 1946) in paragraph at lines 4489--4493 []\T1/zi4/m/it/10 "--update"[]\T1/ptm/m/n/10 . Since \T1/phv/m/n/10 R \T1/ptm/m /n/10 4.2.0, []\T1/zi4/m/it/10 "--no-wrap" []\T1/ptm/m/n/10 is used when called from Underfull \hbox (badness 1838) in paragraph at lines 4517--4523 []\T1/ptm/m/n/10 The re-main-ing steps are done only if file `\T1/zi4/m/it/10 p o/\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 .pot\T1/ptm/m/n/10 ' al-ready ex-ists. The Underfull \hbox (badness 10000) in paragraph at lines 4517--4523 \T1/ptm/m/n/10 `\T1/zi4/m/it/10 src/*.{c,cc,cpp,m,mm}\T1/ptm/m/n/10 ' files in the pack-age are ex-am-ined to cre-ate a file [2041] [2042] [2043] [2044] [2045] Underfull \hbox (badness 2197) in paragraph at lines 4792--4802 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][][]\T1/z i4/m/it/10 available.packages[][][][]\T1/ptm/m/n/10 : Underfull \hbox (badness 1571) in paragraph at lines 4858--4862 []\T1/ptm/m/n/10 For a re-mote repos-i-tory there is a trade-off be-tween down- load speed and time spent by [2046] [2047] [2048] [2049]) (./utils-pkg.tex [2050] Chapter 14. [2051] Underfull \hbox (badness 2556) in paragraph at lines 47--52 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `[] \T1/zi4/m/it/10 insertions[]\T1/ptm/m/n/10 ', [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] [2061] Underfull \hbox (badness 10000) in paragraph at lines 726--732 []\T1/ptm/m/n/10 Functions []\T1/zi4/m/it/10 aspell_package_Rd_files[]\T1/ptm/m /n/10 , []\T1/zi4/m/it/10 aspell_package_vignettes[]\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 726--732 []\T1/zi4/m/it/10 aspell_package_R_files []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 aspell_package_C_files []\T1/ptm/m/n/10 per-form spell check-ing on the [2062] [2063] [2064] Underfull \hbox (badness 3861) in paragraph at lines 931--936 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields []\T1/zi4/m/it/10 "OS_type"[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 "License"[]\T1/ptm/m/n/10 , []\T1 /zi4/m/it/10 "License_is_FOSS"[]\T1/ptm/m/n/10 , [2065] [2066] [2067] Underfull \hbox (badness 3323) in paragraph at lines 1115--1123 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use []\T1/zi4/m/it /10 bibtex = T|F []\T1/ptm/m/n/10 in-stead!) a num-ber, say $\OML/cmm/m/it/10 m $\T1/ptm/m/n/10 , in-di-cat- Underfull \hbox (badness 2961) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ing that the bib-tex code should be given in ad-di-tion to the f or-mat- Underfull \hbox (badness 3919) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 ted tex \T1/ptm/m/it/10 when \T1/ptm/m/n/10 there are not more t han $\OML/cmm/m/it/10 m$ \T1/ptm/m/n/10 en-tries. The de-fault is Underfull \hbox (badness 2875) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 taken as [][][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex. max", 1) []\T1/ptm/m/n/10 which is []\T1/zi4/m/it/10 1 []\T1/ptm/m/n/10 typ-i-c ally. Underfull \hbox (badness 1817) in paragraph at lines 1115--1123 \T1/ptm/m/n/10 For ex-am-ple, to see no bib-tex at all, you can change the de-f ault by Underfull \hbox (badness 10000) in paragraph at lines 1127--1129 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2068] [2069] [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 1371) in paragraph at lines 1637--1639 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2076] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1707. [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] Underfull \hbox (badness 2057) in paragraph at lines 2358--2360 []\T1/ptm/m/n/10 None for []\T1/zi4/m/it/10 chooseCRANmirror()[]\T1/ptm/m/n/10 , this func-tion is in-voked for its side ef-fect of up-dat-ing [2087] [2088] [2089] [2090] [2091] [2092]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2709 ... the Clipboard in MS Windows}{clipboard} [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101] [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] [2110] [2111] [2112] Underfull \hbox (badness 6842) in paragraph at lines 4006--4011 []\T1/ptm/m/n/10 Support for method []\T1/zi4/m/it/10 "libcurl" []\T1/ptm/m/n/1 0 was op-tional on Win-dows prior to \T1/phv/m/n/10 R \T1/ptm/m/n/10 4.2.0: use [2113] Underfull \hbox (badness 1430) in paragraph at lines 4069--4077 []\T1/ptm/m/n/10 The level of de-tail pro-vided dur-ing trans-fer can be set by the []\T1/zi4/m/it/10 quiet []\T1/ptm/m/n/10 ar-gu-ment and the [2114] [2115] [2116] Underfull \hbox (badness 10000) in paragraph at lines 4274--4276 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][][]\T1/zi4/m/it/10 d ownload.file[][][] []\T1/ptm/m/n/10 and [2117] [2118] [2119] [2120] [2121] [2122] [2123] [2124] [2125] [2126] [2127]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} pdfTeX warning (ext4): destin ation with the same identifier (name{Rfn.format.1}) has been already used, dupl icate ignored \relax l.4983 ...mat Unordered and Ordered Lists}{format} [2128] [2129] [2130] [2131] [2132] [2133] [2134] [2135] [2136] Underfull \hbox (badness 1622) in paragraph at lines 5506--5510 []\T1/ptm/m/n/10 This func-tion will search for Win-dows han-dles, for pass-ing to ex-ter-nal GUIs or to the [2137] [2138] [2139] [2140] [2141] [2142] Underfull \hbox (badness 1448) in paragraph at lines 5885--5890 []\T1/ptm/m/n/10 External pointer ob-jects are com-pared as ref-er-ence ob-ject s, cor-re-spond-ing to call-ing [2143] [2144] [2145] [2146] [2147] [2148] [2149] [2150] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6431. Underfull \hbox (badness 1371) in paragraph at lines 6435--6437 []\T1/ptm/m/n/10 additional named ar-gu-ments such as []\T1/zi4/m/it/10 method []\T1/ptm/m/n/10 and []\T1/zi4/m/it/10 ccaddress []\T1/ptm/m/n/10 to pass to [2151] Underfull \hbox (badness 1502) in paragraph at lines 6524--6529 []\T1/ptm/m/n/10 a char-ac-ter string to be matched in the help page `key-words '. `Key- Underfull \hbox (badness 2103) in paragraph at lines 6524--6529 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2152] [2153] [2154] Underfull \hbox (badness 10000) in paragraph at lines 6697--6706 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2155] Underfull \hbox (badness 2150) in paragraph at lines 6761--6764 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2156] [2157] Underfull \hbox (badness 3118) in paragraph at lines 6900--6902 []\T1/ptm/m/n/10 For de-tails of the lock-ing which is done, see the sec-tion ` Lock-ing' in the help for [2158] [2159] [2160] Underfull \hbox (badness 1325) in paragraph at lines 7079--7083 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][][]\T1/zi4/m/it/10 available.pack ages[][][] []\T1/ptm/m/n/10 list-ing pack-ages avail-able [2161] Underfull \hbox (badness 1424) in paragraph at lines 7171--7174 []\T1/ptm/m/n/10 logical: if true, re-duce the amount of out-put. This is \T1/p tm/m/it/10 not \T1/ptm/m/n/10 passed to [2162] Underfull \hbox (badness 3219) in paragraph at lines 7242--7249 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is []\T1/zi4/m/i t/10 "both" []\T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 able and cur-rent, oth-er-wise try source'. The ac-tion if there are source pack-ages Underfull \hbox (badness 1342) in paragraph at lines 7242--7249 \T1/ptm/m/n/10 which are pre-ferred but may con-tain code which needs to be com -piled is con-trolled by Underfull \hbox (badness 1596) in paragraph at lines 7242--7249 [][][]\T1/zi4/m/it/10 getOption[][][]("install.packages.compile.from.source")[] \T1/ptm/m/n/10 . []\T1/zi4/m/it/10 type = "both" []\T1/ptm/m/n/10 will be silen tly Underfull \hbox (badness 2932) in paragraph at lines 7250--7253 []\T1/ptm/m/n/10 Using pack-ages with []\T1/zi4/m/it/10 type = "source" []\T1/p tm/m/n/10 al-ways works pro-vided the pack-age con-tains no [2163] Underfull \hbox (badness 1024) in paragraph at lines 7377--7380 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing []\T1/zi4/m/it/10 available. packages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 , ] []\T1/ ptm/m/n/10 will [2164] Underfull \hbox (badness 10000) in paragraph at lines 7410--7415 [][][]\T1/zi4/m/it/10 update.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/i t/10 available.packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 download. packages[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 installed.packages[][][] []\T1/ptm/m/n/10 , [2165] [2166] [2167] [2168] [2169] [2170] [2171] [2172] [2173] [2174] [2175] [2176] Underfull \hbox (badness 10000) in paragraph at lines 8114--8116 []\T1/ptm/m/n/10 typically the re-sult of []\T1/zi4/m/it/10 methods(..)[]\T1/pt m/m/n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2177] [2178] [2179] [2180] [2181] [2182] [2183] [2184] [2185] [2186] [2187] [2188] Underfull \hbox (badness 2310) in paragraph at lines 8874--8879 []\T1/ptm/m/n/10 If a `\T1/zi4/m/it/10 DESCRIPTION\T1/ptm/m/n/10 ' file for the given pack-age is found and can suc-cess-fully be read, [2189] [2190] [2191] [2192] [2193] [2194] [2195] [2196] Underfull \hbox (badness 1248) in paragraph at lines 9400--9404 []\T1/zi4/m/it/10 R CMD build []\T1/ptm/m/n/10 builds \T1/phv/m/n/10 R \T1/ptm/ m/n/10 source tar-balls. The name(s) of the pack-ages are taken from the [2197] Underfull \hbox (badness 1789) in paragraph at lines 9480--9482 []\T1/ptm/m/n/10 See `Writ-ing R Ex-ten-sions' and the `R for Win-dows FAQ' for more dis-cus-sion of the [2198] [2199] [2200] [2201] [2202] [2203] [2204] [2205] [2206] [2207] [2208] [2209] [2210] Underfull \hbox (badness 1097) in paragraph at lines 10317--10320 []\T1/ptm/m/n/10 The name []\T1/zi4/m/it/10 "clipboard" []\T1/ptm/m/n/10 may al so be used on Win-dows, in which case [2211] [2212] Underfull \hbox (badness 3000) in paragraph at lines 10453--10458 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 read.table[][][][]\T1/ptm/m/n/10 ; [2213] [2214] [2215] [2216] [2217] [2218] [2219] [2220] [2221] Underfull \hbox (badness 2134) in paragraph at lines 11042--11047 [][][]\T1/zi4/m/it/10 scan[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 type.c onvert[][][][]\T1/ptm/m/n/10 , [][][]\T1/zi4/m/it/10 read.fwf[][][] []\T1/ptm/m /n/10 for read-ing \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ixed \T1/ptm/m/it/10 w\T1/pt m/m/n/10 idth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][][]\T1/zi4/m/ it/10 write.table[][][][]\T1/ptm/m/n/10 ; [2222] Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. The ab-bre-vi-a-tions are for Underfull \hbox (badness 10000) in paragraph at lines 11098--11103 []\T1/zi4/m/it/10 HKEY_LOCAL_MACHINE[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 HKEY_C LASSES_ROOT[]\T1/ptm/m/n/10 . []\T1/zi4/m/it/10 HKEY_CURRENT_USER[]\T1/ptm/m/n/ 10 , [2223] [2224] [2225] [2226] [2227] [2228] [2229] [2230] Underfull \hbox (badness 2469) in paragraph at lines 11592--11596 []\T1/ptm/m/n/10 Wikipedia con-trib-u-tors (2006). Ro-man nu-mer-als. Wikipedia , The Free En-cy-clo-pe-dia. Underfull \hbox (badness 3428) in paragraph at lines 11592--11596 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2231] [2232] [2233] [2234] [2235] [2236] Underfull \hbox (badness 4060) in paragraph at lines 12016--12019 []\T1/ptm/m/n/10 If `[]\T1/zi4/m/it/10 --default-packages[]\T1/ptm/m/n/10 ' is not used, then []\T1/zi4/m/it/10 Rscript []\T1/ptm/m/n/10 checks the en-vi-ron- ment vari-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 12039--12039 []\T1/zi4/m/n/9 Rscript --default-packages=methods,datasets,utils,grDevices,gr aphics,stats -e \TS1/zi4/m/n/9 '\T1/zi4/m/n/9 sessionInfo()\TS1/zi4/m/n/9 '[] [2237] [2238] [2239] [2240] Underfull \hbox (badness 2150) in paragraph at lines 12294--12296 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2241] [2242] [2243] [2244] Underfull \hbox (badness 10000) in paragraph at lines 12514--12518 []\T1/ptm/m/n/10 The de-fault for []\T1/zi4/m/it/10 stylepath []\T1/ptm/m/n/10 is now taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12547--12553 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2245] Underfull \hbox (badness 2762) in paragraph at lines 12562--12570 \T1/ptm/m/n/10 UTF-8 lo-cales (note that pdf-TeX as-sumes UTF-8 by de-fault sin ce 2018). Ei-ther set [2246] [2247] Underfull \hbox (badness 1009) in paragraph at lines 12741--12753 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. If Underfull \hbox (badness 4779) in paragraph at lines 12781--12783 []\T1/ptm/m/n/10 The file `\T1/zi4/m/it/10 Rconsole\T1/ptm/m/n/10 ' con-fig-ure s the R GUI ([]\T1/zi4/m/it/10 Rgui[]\T1/ptm/m/n/10 ) con-sole un-der MS Win-do ws and [2248] Underfull \hbox (badness 1077) in paragraph at lines 12811--12818 \T1/ptm/m/n/10 (strip-ping any trail-ing slash), oth-er-wise to the Win-dows `p er-sonal' di-rec-tory, oth-er-wise to [2249] [2250] [2251] [2252] [2253] [2254] [2255] Underfull \hbox (badness 3780) in paragraph at lines 13219--13223 []\T1/ptm/m/n/10 A Bio-con-duc-tor mir-ror can be se-lected by set-ting [][][]\ T1/zi4/m/it/10 options[][][]("BioC_mirror")[]\T1/ptm/m/n/10 , e.g. via Underfull \hbox (badness 2635) in paragraph at lines 13235--13238 []\T1/ptm/m/n/10 Repository `[]\T1/zi4/m/it/10 CRAN[]\T1/ptm/m/n/10 ' is treate d spe-cially: the value is taken from the cur-rent set-ting of [2256] [2257] [2258] Underfull \hbox (badness 2302) in paragraph at lines 13440--13442 []\T1/ptm/m/n/10 Convert file paths to the short form. This is an in-ter-face t o the Win-dows API call [2259] [2260] [2261] [2262] [2263] Underfull \hbox (badness 10000) in paragraph at lines 13739--13744 []\T1/ptm/m/n/10 logical; if []\T1/zi4/m/it/10 TRUE []\T1/ptm/m/n/10 (de-fault) , [][][]\T1/zi4/m/it/10 deparse[][][](control = ) []\T1/ptm/m/n/10 will not have Underfull \hbox (badness 5970) in paragraph at lines 13748--13751 []\T1/ptm/m/n/10 the page width to be used. The de-fault is the cur-rently ac-t ive [2264] [2265] [2266] [2267] [2268] [2269] [2270] Underfull \hbox (badness 2932) in paragraph at lines 14181--14188 []\T1/ptm/m/n/10 If []\T1/zi4/m/it/10 syntax = NULL []\T1/ptm/m/n/10 (the de-fa ult) then the avail-able syn-tax ob-jects are con-sulted in turn, Underfull \hbox (badness 1688) in paragraph at lines 14181--14188 \T1/ptm/m/n/10 and se-lected if their []\T1/zi4/m/it/10 extension []\T1/ptm/m/n /10 com-po-nent matches (as a reg-exp) the file name. Ob- [2271] [2272] [2273] Underfull \hbox (badness 1460) in paragraph at lines 14346--14354 \T1/ptm/m/n/10 drives can be in-cluded in filepaths). []\T1/zi4/m/it/10 Rtools []\T1/ptm/m/n/10 4 and ear-lier in-cluded a []\T1/zi4/m/it/10 tar []\T1/ptm/m/n /10 which used [2274] [2275] Underfull \hbox (badness 6510) in paragraph at lines 14496--14500 []\T1/ptm/m/n/10 When ar-gu-ment []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 is set to the com-mand []\T1/zi4/m/it/10 tar []\T1/ptm/m/n/10 on ma-cOS, en-vi-ron-men t vari-able Underfull \hbox (badness 10000) in paragraph at lines 14503--14506 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Tar _ (file _ format)$[][]\T1/ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / pubs . opengroup . org / Underfull \hbox (badness 2245) in paragraph at lines 14503--14506 \T1/zi4/m/it/10 onlinepubs / 9699919799 / utilities / pax . html # tag _ 20 _ 9 2 _ 13 _ 06$[][] \T1/ptm/m/n/10 for the way the POSIX [2276] [2277] [2278] [2279] [2280] [2281] [2282] [2283] [2284] [2285] Underfull \hbox (badness 10000) in paragraph at lines 15172--15177 []\T1/ptm/m/n/10 Arguments such as []\T1/zi4/m/it/10 destdir []\T1/ptm/m/n/10 a nd []\T1/zi4/m/it/10 dependencies []\T1/ptm/m/n/10 to be passed to Underfull \hbox (badness 3861) in paragraph at lines 15172--15177 [][][]\T1/zi4/m/it/10 install.packages[][][] []\T1/ptm/m/n/10 and []\T1/zi4/m/i t/10 ignore_repo_cache[]\T1/ptm/m/n/10 , []\T1/zi4/m/it/10 max_repo_cache_age [ ]\T1/ptm/m/n/10 and Underfull \hbox (badness 1052) in paragraph at lines 15178--15180 []\T1/ptm/m/n/10 character, in-di-cat-ing the type of pack-age to down-load and in-stall. 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'/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' Warning message: 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'/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' building/updating vignettes for package 'grid' ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory building/updating vignettes for package 'parallel' ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory building/updating vignettes for package 'utils' ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory building/updating vignettes for package 'stats' ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory processing 'reshape.Rnw' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' touch make-indep-stamp fakeroot debian/rules binary-indep *** make-arch *** /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong" \ CC=gcc \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/r-base-RaPyev/r-base-4.2.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/lib/libR.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/bin/exec/R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' /build/r-base-RaPyev/r-base-4.2.0/modules/R_X11.so is unchanged /build/r-base-RaPyev/r-base-4.2.0/modules/R_de.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' building system startup profile make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' building package 'translations' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' building package 'tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ R_GZIPCMD="/bin/gzip -n" \ libRmath_la_LDFLAGS=-Wl,-soname,libRmath.so.1 \ shared static ) make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' Copying source files make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' making mlutils.d from mlutils.c making d1mach.d from d1mach.c making i1mach.d from i1mach.c making fmax2.d from fmax2.c making fmin2.d from fmin2.c making fprec.d from fprec.c making fround.d from fround.c making ftrunc.d from ftrunc.c making sign.d from sign.c making fsign.d from fsign.c making imax2.d from imax2.c making imin2.d from imin2.c making chebyshev.d from chebyshev.c making log1p.d from log1p.c making lgammacor.d from lgammacor.c making gammalims.d from gammalims.c making stirlerr.d from stirlerr.c making bd0.d from bd0.c making gamma.d from gamma.c making lgamma.d from lgamma.c making gamma_cody.d from gamma_cody.c making beta.d from beta.c making lbeta.d from lbeta.c making polygamma.d from polygamma.c making cospi.d from cospi.c making bessel_i.d from bessel_i.c making bessel_j.d from bessel_j.c making bessel_k.d from bessel_k.c making bessel_y.d from bessel_y.c making choose.d from choose.c making snorm.d from snorm.c making sexp.d from sexp.c making dgamma.d from dgamma.c making pgamma.d from pgamma.c making qgamma.d from qgamma.c making rgamma.d from rgamma.c making dbeta.d from dbeta.c making pbeta.d from pbeta.c making qbeta.d from qbeta.c making rbeta.d from rbeta.c making dunif.d from dunif.c making punif.d from punif.c making qunif.d from qunif.c making runif.d from runif.c making dnorm.d from dnorm.c making pnorm.d from pnorm.c making qnorm.d from qnorm.c making rnorm.d from rnorm.c making dlnorm.d from dlnorm.c making plnorm.d from plnorm.c making qlnorm.d from qlnorm.c making rlnorm.d from rlnorm.c making df.d from df.c making pf.d from pf.c making qf.d from qf.c making rf.d from rf.c making dnf.d from dnf.c making dt.d from dt.c making pt.d from pt.c making qt.d from qt.c making rt.d from rt.c making dnt.d from dnt.c making dchisq.d from dchisq.c making pchisq.d from pchisq.c making qchisq.d from qchisq.c making rchisq.d from rchisq.c making rnchisq.d from rnchisq.c making dbinom.d from dbinom.c making pbinom.d from pbinom.c making qbinom.d from qbinom.c making rbinom.d from rbinom.c making rmultinom.d from rmultinom.c making dcauchy.d from dcauchy.c making pcauchy.d from pcauchy.c making qcauchy.d from qcauchy.c making rcauchy.d from rcauchy.c making dexp.d from dexp.c making pexp.d from pexp.c making qexp.d from qexp.c making rexp.d from rexp.c making dgeom.d from dgeom.c making pgeom.d from pgeom.c making qgeom.d from qgeom.c making rgeom.d from rgeom.c making dhyper.d from dhyper.c making phyper.d from phyper.c making qhyper.d from qhyper.c making rhyper.d from rhyper.c making dnbinom.d from dnbinom.c making pnbinom.d from pnbinom.c making qnbinom.d from qnbinom.c making qnbinom_mu.d from qnbinom_mu.c making rnbinom.d from rnbinom.c making dpois.d from dpois.c making ppois.d from ppois.c making qpois.d from qpois.c making rpois.d from rpois.c making dweibull.d from dweibull.c making pweibull.d from pweibull.c making qweibull.d from qweibull.c making rweibull.d from rweibull.c making dlogis.d from dlogis.c making plogis.d from plogis.c making qlogis.d from qlogis.c making rlogis.d from rlogis.c making dnchisq.d from dnchisq.c making pnchisq.d from pnchisq.c making qnchisq.d from qnchisq.c making dnbeta.d from dnbeta.c making pnbeta.d from pnbeta.c making qnbeta.d from qnbeta.c making pnf.d from pnf.c making pnt.d from pnt.c making qnf.d from qnf.c making qnt.d from qnt.c making ptukey.d from ptukey.c making qtukey.d from qtukey.c making toms708.d from toms708.c making wilcox.d from wilcox.c making signrank.d from signrank.c making std_unif.d from std_unif.c make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.lo gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -shared -fopenmp -Wl,-z,relro -o libRmath.so -Wl,-soname,libRmath.so.1 mlutils.lo d1mach.lo i1mach.lo fmax2.lo fmin2.lo fprec.lo fround.lo ftrunc.lo sign.lo fsign.lo imax2.lo imin2.lo chebyshev.lo log1p.lo lgammacor.lo gammalims.lo stirlerr.lo bd0.lo gamma.lo lgamma.lo gamma_cody.lo beta.lo lbeta.lo polygamma.lo cospi.lo bessel_i.lo bessel_j.lo bessel_k.lo bessel_y.lo choose.lo snorm.lo sexp.lo dgamma.lo pgamma.lo qgamma.lo rgamma.lo dbeta.lo pbeta.lo qbeta.lo rbeta.lo dunif.lo punif.lo qunif.lo runif.lo dnorm.lo pnorm.lo qnorm.lo rnorm.lo dlnorm.lo plnorm.lo qlnorm.lo rlnorm.lo df.lo pf.lo qf.lo rf.lo dnf.lo dt.lo pt.lo qt.lo rt.lo dnt.lo dchisq.lo pchisq.lo qchisq.lo rchisq.lo rnchisq.lo dbinom.lo pbinom.lo qbinom.lo rbinom.lo rmultinom.lo dcauchy.lo pcauchy.lo qcauchy.lo rcauchy.lo dexp.lo pexp.lo qexp.lo rexp.lo dgeom.lo pgeom.lo qgeom.lo rgeom.lo dhyper.lo phyper.lo qhyper.lo rhyper.lo dnbinom.lo pnbinom.lo qnbinom.lo qnbinom_mu.lo rnbinom.lo dpois.lo ppois.lo qpois.lo rpois.lo dweibull.lo pweibull.lo qweibull.lo rweibull.lo dlogis.lo plogis.lo qlogis.lo rlogis.lo dnchisq.lo pnchisq.lo qnchisq.lo dnbeta.lo pnbeta.lo qnbeta.lo pnf.lo pnt.lo qnf.lo qnt.lo ptukey.lo qtukey.lo toms708.lo wilcox.lo signrank.lo std_unif.lo -lm make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c mlutils.c -o mlutils.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c d1mach.c -o d1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c i1mach.c -o i1mach.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmax2.c -o fmax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fmin2.c -o fmin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fprec.c -o fprec.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fround.c -o fround.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sign.c -o sign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c fsign.c -o fsign.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imax2.c -o imax2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c imin2.c -o imin2.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c log1p.c -o log1p.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gammalims.c -o gammalims.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bd0.c -o bd0.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma.c -o gamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lgamma.c -o lgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c beta.c -o beta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c lbeta.c -o lbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c polygamma.c -o polygamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c cospi.c -o cospi.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c choose.c -o choose.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c snorm.c -o snorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c sexp.c -o sexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgamma.c -o dgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgamma.c -o pgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgamma.c -o qgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgamma.c -o rgamma.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbeta.c -o dbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbeta.c -o pbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbeta.c -o qbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbeta.c -o rbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dunif.c -o dunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c punif.c -o punif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qunif.c -o qunif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c runif.c -o runif.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnorm.c -o dnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnorm.c -o pnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnorm.c -o qnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnorm.c -o rnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plnorm.c -o plnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c df.c -o df.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pf.c -o pf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qf.c -o qf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rf.c -o rf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnf.c -o dnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dt.c -o dt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pt.c -o pt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qt.c -o qt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rt.c -o rt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnt.c -o dnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dchisq.c -o dchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pchisq.c -o pchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qchisq.c -o qchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rchisq.c -o rchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dbinom.c -o dbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pbinom.c -o pbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qbinom.c -o qbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rbinom.c -o rbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pcauchy.c -o pcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qcauchy.c -o qcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rcauchy.c -o rcauchy.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dexp.c -o dexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pexp.c -o pexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qexp.c -o qexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rexp.c -o rexp.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dgeom.c -o dgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pgeom.c -o pgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qgeom.c -o qgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rgeom.c -o rgeom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dhyper.c -o dhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c phyper.c -o phyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qhyper.c -o qhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rhyper.c -o rhyper.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dpois.c -o dpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ppois.c -o ppois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qpois.c -o qpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rpois.c -o rpois.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dweibull.c -o dweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pweibull.c -o pweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qweibull.c -o qweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rweibull.c -o rweibull.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dlogis.c -o dlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c plogis.c -o plogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qlogis.c -o qlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c rlogis.c -o rlogis.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnchisq.c -o pnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnchisq.c -o qnchisq.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c dnbeta.c -o dnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnbeta.c -o pnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnbeta.c -o qnbeta.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnf.c -o pnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c pnt.c -o pnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnf.c -o qnf.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qnt.c -o qnt.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c ptukey.c -o ptukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c qtukey.c -o qtukey.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c toms708.c -o toms708.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c wilcox.c -o wilcox.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c signrank.c -o signrank.o gcc -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -c std_unif.c -o std_unif.o ar -cr libRmath.a mlutils.o d1mach.o i1mach.o fmax2.o fmin2.o fprec.o fround.o ftrunc.o sign.o fsign.o imax2.o imin2.o chebyshev.o log1p.o lgammacor.o gammalims.o stirlerr.o bd0.o gamma.o lgamma.o gamma_cody.o beta.o lbeta.o polygamma.o cospi.o bessel_i.o bessel_j.o bessel_k.o bessel_y.o choose.o snorm.o sexp.o dgamma.o pgamma.o qgamma.o rgamma.o dbeta.o pbeta.o qbeta.o rbeta.o dunif.o punif.o qunif.o runif.o dnorm.o pnorm.o qnorm.o rnorm.o dlnorm.o plnorm.o qlnorm.o rlnorm.o df.o pf.o qf.o rf.o dnf.o dt.o pt.o qt.o rt.o dnt.o dchisq.o pchisq.o qchisq.o rchisq.o rnchisq.o dbinom.o pbinom.o qbinom.o rbinom.o rmultinom.o dcauchy.o pcauchy.o qcauchy.o rcauchy.o dexp.o pexp.o qexp.o rexp.o dgeom.o pgeom.o qgeom.o rgeom.o dhyper.o phyper.o qhyper.o rhyper.o dnbinom.o pnbinom.o qnbinom.o qnbinom_mu.o rnbinom.o dpois.o ppois.o qpois.o rpois.o dweibull.o pweibull.o qweibull.o rweibull.o dlogis.o plogis.o qlogis.o rlogis.o dnchisq.o pnchisq.o qnchisq.o dnbeta.o pnbeta.o qnbeta.o pnf.o pnt.o qnf.o qnt.o ptukey.o qtukey.o toms708.o wilcox.o signrank.o std_unif.o ranlib libRmath.a make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' R_GZIPCMD="/bin/gzip -n" \ /usr/bin/make docs R_CMD_BUILD_HELP_OPTS="--txt --example" make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/r-base-RaPyev/r-base-4.2.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/lib/libR.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/bin/exec/R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' /build/r-base-RaPyev/r-base-4.2.0/modules/R_X11.so is unchanged /build/r-base-RaPyev/r-base-4.2.0/modules/R_de.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' building system startup profile make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' building package 'translations' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' building package 'tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' installing parsed Rd make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory base Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory stats Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory utils Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory methods Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory graphics Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory grDevices Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory datasets Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory grid Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory tools Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory tcltk Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory splines Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory stats4 Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory compiler Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory parallel make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' building/updating package metadata ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' writing package indices make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' /usr/bin/make javaconf make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/build/r-base-RaPyev/r-base-4.2.0"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/lib/libR.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' /build/r-base-RaPyev/r-base-4.2.0/bin/exec/R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: 'R_X11.so' is up to date. make[5]: 'R_de.so' is up to date. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' /build/r-base-RaPyev/r-base-4.2.0/modules/R_X11.so is unchanged /build/r-base-RaPyev/r-base-4.2.0/modules/R_de.so is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' building system startup profile make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/profile' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' building package 'translations' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/translations' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' building package 'tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/compiler' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tools' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' installing 'sysdata.rda' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/utils' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grDevices' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/graphics' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/datasets' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/methods' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/grid' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/splines' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/stats4' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/tcltk' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' all.R is unchanged Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[6]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[7]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/parallel' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library/base' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing parsed NAMESPACE files Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 11.0.14.1 Java home path : /usr/lib/jvm/default-java Java compiler : /usr/lib/jvm/default-java/bin/javac Java headers gen.: Java archive tool: /usr/lib/jvm/default-java/bin/jar ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. ERROR: ld.so: object 'libfakeroot-sysv.so' from LD_PRELOAD cannot be preloaded (cannot open shared object file): ignored. trying to compile and link a JNI program detected JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux detected JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Entering directory '/tmp/Rjavareconf.1zFBn1' gcc -I"/build/r-base-RaPyev/r-base-4.2.0/include" -DNDEBUG -I/usr/lib/jvm/default-java/include -I/usr/lib/jvm/default-java/include/linux -fpic -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -c conftest.c -o conftest.o gcc -shared -L/build/r-base-RaPyev/r-base-4.2.0/lib -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/build/r-base-RaPyev/r-base-4.2.0/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.1zFBn1' JAVA_HOME : /usr/lib/jvm/default-java Java library path: $(JAVA_HOME)/lib/server JNI cpp flags : -I$(JAVA_HOME)/include -I$(JAVA_HOME)/include/linux JNI linker flags : -L$(JAVA_HOME)/lib/server -ljvm Updating Java configuration in /build/r-base-RaPyev/r-base-4.2.0 Done. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' touch make-arch-stamp *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core /usr/bin/make DESTDIR=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core install make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/m4' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tools' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc' installing doc ... mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' installing doc/html ... mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/html' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' installing doc/manual ... mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc/manual mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc/manual/images make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/etc' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/etc' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/share' installing share ... mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/R mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/dictionaries mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/java mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/make mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/Rd mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/Rd/macros mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/share' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/scripts' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include/R_ext' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/blas' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tre' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tzone' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/tzone' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/xdr' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/xdr' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/intl' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra/intl' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/extra' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/appl' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Nothing to be done for 'install'. make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/main' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/internet' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/lapack' make[4]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[4]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules/X11' make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/modules' make[3]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory make[3]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/library' make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/tests' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' (cd src/unix; \ rm -vf Rscript /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -D_REENTRANT" \ CC=gcc \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' gcc -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-RaPyev/r-base-4.2.0=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -D_REENTRANT -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/unix' #ls -ltr /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/Rscript' #ls -ltr /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/ #strings /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core install ) make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/include' /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/src/nmath/standalone' chmod a+x /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/COPYING removed '/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/COPYING' (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc/COPYING removed '/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc/COPYING' (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/texmf/tex/latex && \ ln -s ../../../R/share/texmf R) dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html dh_movefiles --sourcedir=debian/r-base-core -pr-base-html make prefix=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr \ rdocdir=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory Warning message: In normalizePath("~") : path[1]="/nonexistent": No such file or directory installing R manuals in PDF format ... make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' make prefix=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr \ infodir=/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0' make[2]: Entering directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' mkdir -p -- /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info" installing R info pages ... updating '/build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir' ... you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0/doc/manual' make[1]: Leaving directory '/build/r-base-RaPyev/r-base-4.2.0' dh_movefiles --sourcedir=debian/r-base-core -pr-doc-pdf dh_movefiles --sourcedir=debian/r-base-core -pr-doc-html gunzip -9v /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/*.gz /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.2% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-FAQ.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-admin.info.gz: 68.4% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-admin.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-data.info.gz: 70.9% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-data.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.8% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-1 /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 68.1% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-2 /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 78.5% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info-3 /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info.gz: 70.2% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-exts.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.4% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-intro.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-ints.info.gz: 68.7% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-ints.info /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.9% -- replaced with /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/share/info/R-lang.info dh_movefiles --sourcedir=debian/r-base-core -pr-doc-info rm -vf /build/r-base-RaPyev/r-base-4.2.0/debian/r-doc-info/usr/share/info/dir \ /build/r-base-RaPyev/r-base-4.2.0/debian/r-doc-info/usr/share/info/dir.old removed '/build/r-base-RaPyev/r-base-4.2.0/debian/r-doc-info/usr/share/info/dir' touch install-indep-stamp dh_installdirs -pr-mathlib usr/include usr/lib \ usr/share/lintian/overrides \ usr/lib/pkgconfig dh_movefiles --sourcedir=debian/r-base-core -pr-mathlib (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-mathlib/usr/lib; \ ls -l ; \ mv -v libRmath.so libRmath.so.1.0.0; \ ln -sv libRmath.so.1.0.0 libRmath.so.1; \ ln -sv libRmath.so.1 libRmath.so) total 2316 -rw-r--r-- 1 root root 1591476 Apr 30 08:52 libRmath.a -rwxr-xr-x 1 root root 775160 Apr 30 08:52 libRmath.so drwxr-xr-x 2 root root 25 Apr 30 08:53 pkgconfig renamed 'libRmath.so' -> 'libRmath.so.1.0.0' 'libRmath.so.1' -> 'libRmath.so.1.0.0' 'libRmath.so' -> 'libRmath.so.1' install -m 0644 src/include/Rmath.h \ /build/r-base-RaPyev/r-base-4.2.0/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/etc/R (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/R/etc; \ cat /build/r-base-RaPyev/r-base-4.2.0/debian/Renviron-R_LIBS.patch | patch --dry-run; \ mv Makeconf repositories ldpaths ../../../../etc/R/; \ mv Renviron Renviron.ucf; \ ln -s /etc/R/Makeconf .; \ ln -s /etc/R/Renviron .; \ ln -s /etc/R/Renviron.site .; \ ln -s /etc/R/Rprofile.site .; \ ln -s /etc/R/ldpaths .; \ ln -s /etc/R/repositories . ) checking file Renviron Hunk #1 succeeded at 51 with fuzz 2 (offset 18 lines). dh_bash-completion # edd 12 Jan 2016 new location #install -m 0644 debian/R.bash-completion \ # debian/r-base-core/usr/share/bash-completion/completions/R (cd /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-core/usr/lib/; \ ln -sv R/lib/libR.so . ) './libR.so' -> 'R/lib/libR.so' (cd debian/icon-class-patch && munpack rlogo_icon.png.mpack) rlogo_icon.png (application/octet-stream) install -m 0644 debian/icon-class-patch/rlogo_icon.png \ debian/r-base-core/usr/share/icons/hicolor/48x48/apps install -m 0644 debian/icon-class-patch/Rlogo.svg \ debian/r-base-core/usr/share/icons/hicolor/scalable/apps/rlogo_icon.svg install -m 0644 debian/icon-class-patch/R.desktop \ debian/r-base-core/usr/share/applications rm debian/icon-class-patch/rlogo_icon.png touch install-arch-stamp *** binary-indep *** dh_testdir -i dh_testroot -i dh_link -i dh_installdocs -i dh_installdocs -v -pr-doc-html install -p -m0644 debian/copyright debian/r-doc-html/usr/share/doc/r-doc-html/copyright install -p -m0644 debian/r-doc-html.doc-base.data debian/r-doc-html/usr/share/doc-base/r-doc-html.r-data install -p -m0644 debian/r-doc-html.doc-base.exts debian/r-doc-html/usr/share/doc-base/r-doc-html.r-extensions install -p -m0644 debian/r-doc-html.doc-base.faq debian/r-doc-html/usr/share/doc-base/r-doc-html.r-faq install -p -m0644 debian/r-doc-html.doc-base.ints debian/r-doc-html/usr/share/doc-base/r-doc-html.r-ints install -p -m0644 debian/r-doc-html.doc-base.lang debian/r-doc-html/usr/share/doc-base/r-doc-html.r-language install -p -m0644 debian/r-doc-html.doc-base.intro debian/r-doc-html/usr/share/doc-base/r-doc-html.r-intro install -p -m0644 debian/r-doc-html.doc-base.admin debian/r-doc-html/usr/share/doc-base/r-doc-html.r-admin dh_installchangelogs -i dh_installdirs -pr-base-dev usr/share/R/debian install -p -m 0755 debian/r-cran.mk \ /build/r-base-RaPyev/r-base-4.2.0/debian/r-base-dev/usr/share/R/debian dh_compress -i dh_fixperms -i dh_installdeb -i dh_gencontrol -i dh_md5sums -i dh_builddeb -i dpkg-deb: building package 'r-base' in '../r-base_4.2.0-1_all.deb'. dpkg-deb: building package 'r-base-dev' in '../r-base-dev_4.2.0-1_all.deb'. dpkg-deb: building package 'r-doc-info' in '../r-doc-info_4.2.0-1_all.deb'. dpkg-deb: building package 'r-base-html' in '../r-base-html_4.2.0-1_all.deb'. dpkg-deb: building package 'r-doc-html' in '../r-doc-html_4.2.0-1_all.deb'. dpkg-deb: building package 'r-doc-pdf' in '../r-doc-pdf_4.2.0-1_all.deb'. dpkg-deb: building package 'r-recommended' in '../r-recommended_4.2.0-1_all.deb'. dpkg-genbuildinfo --build=all -O../r-base_4.2.0-1_all.buildinfo dpkg-genchanges --build=all -O../r-base_4.2.0-1_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/r-base-RaPyev /tmp/r-base-4.2.0-1l3uo6a2s I: cleaning package lists and apt cache... W: deleting files in /tmp: hsperfdata_root W: deleting files in /tmp: texfonts W: deleting files in /tmp: hsperfdata_builduser I: removing tempdir /tmp/mmdebstrap.3by6jHV_m0... I: success in 2875.0781 seconds md5: r-base-dev_4.2.0-1_all.deb: OK md5: r-base-html_4.2.0-1_all.deb: OK md5: r-base_4.2.0-1_all.deb: OK md5: r-doc-html_4.2.0-1_all.deb: OK md5: r-doc-info_4.2.0-1_all.deb: OK md5: Value of 'md5' differs for r-doc-pdf_4.2.0-1_all.deb md5: Size differs for r-doc-pdf_4.2.0-1_all.deb md5: r-recommended_4.2.0-1_all.deb: OK sha1: r-base-dev_4.2.0-1_all.deb: OK sha1: r-base-html_4.2.0-1_all.deb: OK sha1: r-base_4.2.0-1_all.deb: OK sha1: r-doc-html_4.2.0-1_all.deb: OK sha1: r-doc-info_4.2.0-1_all.deb: OK sha1: Value of 'sha1' differs for r-doc-pdf_4.2.0-1_all.deb sha1: Size differs for r-doc-pdf_4.2.0-1_all.deb sha1: r-recommended_4.2.0-1_all.deb: OK sha256: r-base-dev_4.2.0-1_all.deb: OK sha256: r-base-html_4.2.0-1_all.deb: OK sha256: r-base_4.2.0-1_all.deb: OK sha256: r-doc-html_4.2.0-1_all.deb: OK sha256: r-doc-info_4.2.0-1_all.deb: OK sha256: Value of 'sha256' differs for r-doc-pdf_4.2.0-1_all.deb sha256: Size differs for r-doc-pdf_4.2.0-1_all.deb sha256: r-recommended_4.2.0-1_all.deb: OK Checksums: FAIL Cannot generate diffoscope for r-doc-pdf_4.2.0-1_all.deb: RetryError[]