Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/r/r-base/r-base_4.1.2-1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/r-base-4.1.2-1zot1b6s9/r-base_4.1.2-1_amd64.buildinfo Get source package info: r-base=4.1.2-1 Source URL: http://snapshot.notset.fr/mr/package/r-base/4.1.2-1/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 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-3+b2 bash-completion=1:2.11-4 binutils=2.37-7 binutils-common=2.37-7 binutils-x86-64-linux-gnu=2.37-7 bison=2:3.8.2+dfsg-1 bsdextrautils=2.37.2-4 bsdutils=1:2.37.2-4 build-essential=12.9 bzip2=1.0.8-4 ca-certificates=20211016 ca-certificates-java=20190909 coreutils=8.32-4+b1 cpp=4:11.2.0-2 cpp-11=11.2.0-10 dash=0.5.11+git20210903+057cd650a4ed-1 debconf=1.5.79 debhelper=13.5.2 debianutils=5.5-1 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=1.12.0-2 diffutils=1:3.7-5 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 file=1:5.39-3 findutils=4.8.0-1 fontconfig=2.13.1-4.2 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 fonts-lmodern=2.004.5-6.1 g++=4:11.2.0-2 g++-11=11.2.0-10 gcc=4:11.2.0-2 gcc-11=11.2.0-10 gcc-11-base=11.2.0-10 gettext=0.21-4 gettext-base=0.21-4 gfortran=4:11.2.0-2 gfortran-11=11.2.0-10 gir1.2-freedesktop=1.70.0-2 gir1.2-glib-2.0=1.70.0-2 gir1.2-harfbuzz-0.0=2.7.4-1 gir1.2-pango-1.0=1.48.10+ds1-1 grep=3.7-1 groff-base=1.22.4-7 gzip=1.10-4 hostname=3.23 icu-devtools=67.1-7 init-system-helpers=1.60 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=11.2.0-10 libasound2=1.2.5.1-1 libasound2-data=1.2.5.1-1 libatomic1=11.2.0-10 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1 libavahi-client3=0.8-5 libavahi-common-data=0.8-5 libavahi-common3=0.8-5 libbinutils=2.37-7 libblas-dev=3.10.0-1 libblas3=3.10.0-1 libblkid-dev=2.37.2-4 libblkid1=2.37.2-4 libbrotli-dev=1.0.9-2+b2 libbrotli1=1.0.9-2+b2 libbsd0=0.11.3-1 libbz2-1.0=1.0.8-4 libbz2-dev=1.0.8-4 libc-bin=2.32-4 libc-dev-bin=2.32-4 libc6=2.32-4 libc6-dev=2.32-4 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+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-10 libcom-err2=1.46.4-1 libcommons-logging-java=1.2-2 libcommons-parent-java=43-1 libcrypt-dev=1:4.4.25-2 libcrypt1=1:4.4.25-2 libctf-nobfd0=2.37-7 libctf0=2.37-7 libcups2=2.3.3op2-7 libcurl4=7.74.0-1.3+b1 libcurl4-openssl-dev=7.74.0-1.3+b1 libdatrie-dev=0.2.13-2 libdatrie1=0.2.13-2 libdb5.3=5.3.28+dfsg1-0.8 libdbus-1-3=1.12.20-3 libdebconfclient0=0.260 libdebhelper-perl=13.5.2 libdeflate-dev=1.8-1 libdeflate0=1.8-1 libdpkg-perl=1.20.9 libdrm-amdgpu1=2.4.107-8 libdrm-common=2.4.107-8 libdrm-intel1=2.4.107-8 libdrm-nouveau2=2.4.107-8 libdrm-radeon1=2.4.107-8 libdrm2=2.4.107-8 libedit2=3.1-20210910-1 libelf1=0.185-2 libexpat1=2.4.1-3 libexpat1-dev=2.4.1-3 libffi-dev=3.4.2-3 libffi8=3.4.2-3 libfile-stripnondeterminism-perl=1.12.0-2 libfontbox-java=1:1.8.16-2 libfontconfig-dev=2.13.1-4.2 libfontconfig1=2.13.1-4.2 libfontconfig1-dev=2.13.1-4.2 libfontenc1=1:1.1.4-1 libfreetype-dev=2.11.0+dfsg-1 libfreetype6=2.11.0+dfsg-1 libfreetype6-dev=2.11.0+dfsg-1 libfribidi-dev=1.0.8-2 libfribidi0=1.0.8-2 libgcc-11-dev=11.2.0-10 libgcc-s1=11.2.0-10 libgcrypt20=1.9.4-3+b1 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran-11-dev=11.2.0-10 libgfortran5=11.2.0-10 libgif7=5.1.9-2 libgirepository-1.0-1=1.70.0-2 libgl1=1.3.4-2+b1 libgl1-mesa-dri=21.2.4-1 libglapi-mesa=21.2.4-1 libglib2.0-0=2.70.0-3 libglib2.0-bin=2.70.0-3 libglib2.0-data=2.70.0-3 libglib2.0-dev=2.70.0-3 libglib2.0-dev-bin=2.70.0-3 libglvnd0=1.3.4-2+b1 libglx-mesa0=21.2.4-1 libglx0=1.3.4-2+b1 libgmp10=2:6.2.1+dfsg-2 libgnutls30=3.7.2-2 libgomp1=11.2.0-10 libgpg-error0=1.42-3 libgraphite2-3=1.3.14-1 libgraphite2-dev=1.3.14-1 libgssapi-krb5-2=1.18.3-7 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=11.2.0-10 libjbig-dev=2.1-3.1+b2 libjbig0=2.1-3.1+b2 libjpeg-dev=1:2.0.6-4 libjpeg62-turbo=1:2.0.6-4 libjpeg62-turbo-dev=1:2.0.6-4 libjs-jquery=3.5.1+dfsg+~3.5.5-8 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkpathsea6=2021.20210626.59705-1 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 liblapack-dev=3.10.0-1 liblapack3=3.10.0-1 liblcms2-2=2.12~rc1-2 libldap-2.4-2=2.4.59+dfsg-1 libllvm12=1:12.0.1-16 liblsan0=11.2.0-10 liblz4-1=1.9.3-2 liblzma-dev=5.2.5-2 liblzma5=5.2.5-2 liblzo2-2=2.10-2 libmagic-mgc=1:5.39-3 libmagic1=1:5.39-3 libmd0=1.0.4-1 libmime-charset-perl=1.012.2-1 libmount-dev=2.37.2-4 libmount1=2.37.2-4 libmpc3=1.2.1-1 libmpdec3=2.5.1-2 libmpfr6=4.1.0-3 libncurses-dev=6.2+20210905-1 libncurses5-dev=6.2+20210905-1 libncurses6=6.2+20210905-1 libncursesw6=6.2+20210905-1 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libnspr4=2:4.32-1 libnss3=2:3.70-1 libp11-kit0=0.24.0-5 libpam-modules=1.4.0-10 libpam-modules-bin=1.4.0-10 libpam-runtime=1.4.0-10 libpam0g=1.4.0-10 libpango-1.0-0=1.48.10+ds1-1 libpango1.0-dev=1.48.10+ds1-1 libpangocairo-1.0-0=1.48.10+ds1-1 libpangoft2-1.0-0=1.48.10+ds1-1 libpangoxft-1.0-0=1.48.10+ds1-1 libpaper-utils=1.1.28+b1 libpaper1=1.1.28+b1 libpciaccess0=0.16-1 libpcre16-3=2:8.39-13 libpcre2-16-0=10.36-2 libpcre2-32-0=10.36-2 libpcre2-8-0=10.36-2 libpcre2-dev=10.36-2 libpcre2-posix2=10.36-2 libpcre3=2:8.39-13 libpcre3-dev=2:8.39-13 libpcre32-3=2:8.39-13 libpcrecpp0v5=2:8.39-13 libpcsclite1=1.9.4-1 libpdfbox-java=1:1.8.16-2 libperl5.32=5.32.1-6 libpipeline1=1.5.3-1 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=3.9.2-3 libpython3.9-minimal=3.9.7-4 libpython3.9-stdlib=3.9.7-4 libquadmath0=11.2.0-10 libreadline-dev=8.1-2 libreadline8=8.1-2 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg-2.2 libsasl2-modules-db=2.1.27+dfsg-2.2 libseccomp2=2.5.2-2 libselinux1=3.1-3+b1 libselinux1-dev=3.1-3+b1 libsensors-config=1:3.6.0-7 libsensors5=1:3.6.0-7 libsepol1=3.1-1 libsepol1-dev=3.1-1 libsigsegv2=2.13-1 libsm-dev=2:1.2.3-1 libsm6=2:1.2.3-1 libsmartcols1=2.37.2-4 libsombok3=2.4.0-2+b1 libsqlite3-0=3.36.0-2 libssh2-1=1.10.0-2 libssl1.1=1.1.1l-1 libstdc++-11-dev=11.2.0-10 libstdc++6=11.2.0-10 libsub-override-perl=0.09-2 libsynctex2=2021.20210626.59705-1 libsystemd0=249.5-1 libtasn1-6=4.17.0-2 libtcl8.6=8.6.11+dfsg-1 libteckit0=2.5.10+ds1-3 libtexlua53=2021.20210626.59705-1 libtexluajit2=2021.20210626.59705-1 libtext-unidecode-perl=1.30-1 libthai-data=0.1.28-4.1 libthai-dev=0.1.28-4.1 libthai0=0.1.28-4.1 libtiff-dev=4.3.0-2 libtiff5=4.3.0-2 libtiff5-dev=4.3.0-2 libtiffxx5=4.3.0-2 libtinfo6=6.2+20210905-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtk8.6=8.6.11.1-1 libtool=2.4.6-15 libtsan0=11.2.0-10 libubsan1=11.2.0-10 libuchardet0=0.0.7-1 libudev1=249.5-1 libunicode-linebreak-perl=0.0.20190101-1+b3 libunistring2=0.9.10-6 libunwind8=1.3.2-2 libuuid1=2.37.2-4 libvulkan1=1.2.189.0-2 libwebp6=0.6.1-2.1 libx11-6=2:1.7.2-2+b1 libx11-data=2:1.7.2-2 libx11-dev=2:1.7.2-2+b1 libx11-xcb1=2:1.7.2-2+b1 libxau-dev=1:1.0.9-1 libxau6=1:1.0.9-1 libxaw7=2:1.0.13-1.1 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=1:5.0.3-2 libxfont2=1:2.0.4-1 libxft-dev=2.3.2-2 libxft2=2.3.2-2 libxi6=2:1.8-1 libxkbfile1=1:1.1.0-1 libxml-libxml-perl=2.0134+dfsg-2+b1 libxml-namespacesupport-perl=1.12-1.1 libxml-sax-base-perl=1.09-1.1 libxml-sax-perl=1.02+dfsg-3 libxml2=2.9.12+dfsg-5 libxmu6=2:1.1.2-2+b3 libxmuu1=2:1.1.2-2+b3 libxpm4=1:3.5.12-1 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=1:1.2.0-1 libxt6=1:1.2.0-1 libxtst6=2:1.2.3-1 libxxf86vm1=1:1.1.4-1+b2 libz3-4=4.8.12-1+b1 libzstd1=1.4.8+dfsg-3 libzzip-0-13=0.13.72+dfsg.1-1.1 linux-libc-dev=5.14.12-1 lmodern=2.004.5-6.1 login=1:4.8.1-1 lsb-base=11.1.0 m4=1.4.18-5 make=4.3-4.1 man-db=2.9.4-2 mawk=1.3.4.20200120-2 media-types=4.0.0 mpack=1.6-18 ncurses-base=6.2+20210905-1 ncurses-bin=6.2+20210905-1 openjdk-11-jdk=11.0.13+8-1 openjdk-11-jdk-headless=11.0.13+8-1 openjdk-11-jre=11.0.13+8-1 openjdk-11-jre-headless=11.0.13+8-1 openssl=1.1.1l-1 pango1.0-tools=1.48.10+ds1-1 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 pkg-config=0.29.2-1 po-debconf=1.0.21+nmu1 preview-latex-style=12.2-1 python3=3.9.2-3 python3-distutils=3.9.7-1 python3-lib2to3=3.9.7-1 python3-minimal=3.9.2-3 python3.9=3.9.7-4 python3.9-minimal=3.9.7-4 readline-common=8.1-2 rpcsvc-proto=1.4.2-4 sed=4.8-1 sensible-utils=0.0.17 sysvinit-utils=3.00-1 t1utils=1.41-4 tar=1.34+dfsg-1 tcl8.6=8.6.11+dfsg-1 tcl8.6-dev=8.6.11+dfsg-1 tex-common=6.17 texinfo=6.8-3 texlive-base=2021.20210921-1 texlive-binaries=2021.20210626.59705-1 texlive-extra-utils=2021.20210921-1 texlive-fonts-extra=2021.20210921-1 texlive-fonts-recommended=2021.20210921-1 texlive-latex-base=2021.20210921-1 texlive-latex-extra=2021.20210921-1 texlive-latex-recommended=2021.20210921-1 texlive-luatex=2021.20210921-1 texlive-pictures=2021.20210921-1 texlive-plain-generic=2021.20210921-1 tk8.6=8.6.11.1-1 tk8.6-dev=8.6.11.1-1 tzdata=2021e-1 ucf=3.0043 util-linux=2.37.2-4 uuid-dev=2.37.2-4 x11-common=1:7.7+23 x11-xkb-utils=7.7+5 x11proto-core-dev=2021.5-1 x11proto-dev=2021.5-1 xauth=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=2.33-1 xorg-sgml-doctools=1:1.11-1.1 xserver-common=2:1.20.11-1 xtrans-dev=1.4.0-1 xvfb=2:1.20.11-1 xz-utils=5.2.5-2 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=1:1.2.11.dfsg-2 --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/20211106T025313Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211106T025313Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211102T034943Z/ 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=4.1.2-1 && mkdir -p /build/r-base-PT7Nxy && dpkg-source --no-check -x /*.dsc /build/r-base-PT7Nxy/r-base-4.1.2 && chown -R builduser:builduser /build/r-base-PT7Nxy" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-base-PT7Nxy/r-base-4.1.2 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1635764406" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/r-base-PT7Nxy /tmp/r-base-4.1.2-1zot1b6s9 bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211102T034943Z 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.oTxuCVvu47 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.oTxuCVvu47 Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-4). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20211102T034943Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211102T034943Z unstable/main amd64 fakeroot amd64 1.26-1 [87.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (742 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 ... 4666 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.26-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.26-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.26-1_amd64.deb ... Unpacking fakeroot (1.26-1) ... Setting up libfakeroot:amd64 (1.26-1) ... Setting up fakeroot (1.26-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.32-4) ... 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/20211106T025313Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211106T025313Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211102T034943Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.oTxuCVvu47 Get:1 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm InRelease [128 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20211102T034943Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main Sources [11.7 MB] Get:4 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main amd64 Packages [11.2 MB] Fetched 23.0 MB in 19s (1186 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.oTxuCVvu47 I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d r-base=4.1.2-1 && mkdir -p /build/r-base-PT7Nxy && dpkg-source --no-check -x /*.dsc /build/r-base-PT7Nxy/r-base-4.1.2 && chown -R builduser:builduser /build/r-base-PT7Nxy"' exec /tmp/mmdebstrap.oTxuCVvu47 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 34.1 MB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main r-base 4.1.2-1 (dsc) [3014 B] Get:2 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main r-base 4.1.2-1 (tar) [34.0 MB] Get:3 http://snapshot.notset.fr/archive/debian/20211106T025313Z bookworm/main r-base 4.1.2-1 (diff) [97.4 kB] Fetched 34.1 MB in 27s (1271 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'r-base_4.1.2-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting r-base in /build/r-base-PT7Nxy/r-base-4.1.2 dpkg-source: info: unpacking r-base_4.1.2.orig.tar.gz dpkg-source: info: unpacking r-base_4.1.2-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-base-PT7Nxy/r-base-4.1.2 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1635764406" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap.oTxuCVvu47 dpkg-buildpackage: info: source package r-base dpkg-buildpackage: info: source version 4.1.2-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Dirk Eddelbuettel dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 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* 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-arch *** 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 -std=gnu99" \ CXX=g++ \ F77=gfortran \ FC=gfortran \ CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -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 \ --with-system-bzlib \ --with-system-pcre \ --with-system-zlib \ --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 configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib 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... /usr/bin/pager checking for /bin/tar... /bin/tar checking for tex... /usr/bin/tex checking for pdftex... /usr/bin/pdftex checking for pdflatex... /usr/bin/pdflatex checking for makeindex... /usr/bin/makeindex checking for texi2any... /usr/bin/texi2any checking whether texi2any version is at least 5.1... yes checking for ginstall-info... no checking for install-info... no checking for texi2dvi... /usr/bin/texi2dvi checking for kpsewhich... /usr/bin/kpsewhich checking for latex inconsolata package... found zi4.sty checking for unzip... /usr/bin/unzip checking for zip... /usr/bin/zip checking for gzip... /bin/gzip -n checking for bzip2... /bin/bzip2 using default browser ... xdg-open checking for acroread... no checking for acroread4... no checking for xdg-open... /usr/bin/xdg-open checking for working aclocal... found checking for working autoconf... found checking for working autoheader... found checking for bison... bison -y checking for notangle... false checking for realpath... /usr/bin/realpath checking for pkg-config... /usr/bin/pkg-config checking for gcc... gcc -std=gnu99 checking whether the C compiler works... yes checking for C compiler default output file name... a.out checking for suffix of executables... checking whether we are cross compiling... no checking for suffix of object files... o checking whether the compiler supports GNU C... yes checking whether gcc -std=gnu99 accepts -g... yes checking for gcc -std=gnu99 option to enable C11 features... -std=gnu11 checking how to run the C preprocessor... gcc -std=gnu99 -std=gnu11 -E checking for grep that handles long lines and -e... /bin/grep checking for egrep... /bin/grep -E checking whether gcc -std=gnu99 -std=gnu11 needs -traditional... no checking for stdio.h... yes checking for stdlib.h... yes checking for string.h... yes checking for inttypes.h... yes checking for stdint.h... yes checking for strings.h... yes checking for sys/stat.h... yes checking for sys/types.h... yes checking for unistd.h... yes checking for wchar.h... yes checking for minix/config.h... no checking 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 -std=gnu99 -std=gnu11 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g can compile C++ code... yes checking how to run the C++ preprocessor... g++ -E checking whether __attribute__((visibility())) is supported... yes checking whether gcc -std=gnu99 -std=gnu11 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 -std=gnu99 -std=gnu11... /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 -std=gnu99 -std=gnu11 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 -std=gnu99 -std=gnu11 supports -fno-rtti -fno-exceptions... no checking for gcc -std=gnu99 -std=gnu11 option to produce PIC... -fPIC -DPIC checking if gcc -std=gnu99 -std=gnu11 PIC flag -fPIC -DPIC works... yes checking if gcc -std=gnu99 -std=gnu11 static flag -static works... yes checking if gcc -std=gnu99 -std=gnu11 supports -c -o file.o... yes checking if gcc -std=gnu99 -std=gnu11 supports -c -o file.o... (cached) yes checking whether the gcc -std=gnu99 -std=gnu11 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 -std=gnu99 -std=gnu11 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 -std=gnu99 -std=gnu11 supports -c -o FILE.lo... yes checking for gcc -std=gnu99 -std=gnu11 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 -std=gnu99 -std=gnu11... -v checking for C libraries of gcc -std=gnu99 -std=gnu11... -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 -std=gnu99 -std=gnu11 agree on int and double... yes checking whether gfortran and gcc -std=gnu99 -std=gnu11 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) -fopenmp checking whether NLS is requested... yes Configuring src/extra/intl directory checking for a race-free mkdir -p... /bin/mkdir -p checking whether we are using the GNU C Library 2 or newer... yes checking for ranlib... (cached) ranlib checking for simple visibility declarations... yes checking for stdint.h... yes checking for getpagesize... yes checking for working mmap... yes checking whether integer division by zero raises SIGFPE... yes checking for inttypes.h... yes checking for unsigned long long int... yes checking for inttypes.h... (cached) yes checking whether the inttypes.h PRIxNN macros are broken... no checking for ld used by gcc -std=gnu99 -std=gnu11... /usr/bin/ld -m elf_x86_64 checking if the linker (/usr/bin/ld -m elf_x86_64) is GNU ld... yes checking for shared library run path origin... done checking whether imported symbols can be declared weak... yes checking for multithread API to use... none checking for argz.h... yes checking for inttypes.h... 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(cached) extern size_t iconv (iconv_t cd, char * *inbuf, size_t *inbytesleft, char * *outbuf, size_t *outbytesleft); checking for NL_LOCALE_NAME macro... yes checking for bison... bison checking version of bison... 3.8.2, ok checking for long long int... yes checking for long double... yes checking for wchar_t... yes checking for wint_t... yes checking for intmax_t... yes checking whether printf() supports POSIX/XSI format strings... yes checking whether we are using the GNU C Library 2.1 or newer... yes checking for stdint.h... (cached) yes checking for SIZE_MAX... yes checking for stdint.h... (cached) yes checking for CFPreferencesCopyAppValue... no checking for CFLocaleCopyCurrent... no checking for ptrdiff_t... yes checking for stddef.h... yes checking for stdlib.h... (cached) yes checking for string.h... (cached) yes checking for asprintf... yes checking for fwprintf... yes checking for putenv... 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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 configure: WARNING: unrecognized options: --with-system-bzlib, --with-system-pcre, --with-system-zlib R is now configured for x86_64-pc-linux-gnu Source directory: . Installation directory: /usr C compiler: gcc -std=gnu99 -std=gnu11 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran fixed-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong Default C++ compiler: g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++11 compiler: g++ -std=gnu++11 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++14 compiler: g++ -std=gnu++14 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++17 compiler: g++ -std=gnu++17 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g C++20 compiler: g++ -std=gnu++20 -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g Fortran free-form compiler: gfortran -fno-optimize-sibling-calls -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -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-arch *** /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong" \ FCFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ LDFLAGS="-Wl,-z,relro" \ PKG_BUILT_STAMP="""" \ R_GZIPCMD="/bin/gzip -n" \ R make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' creating src/scripts/R.fe make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' mkdir -p -- ../../bin make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' mkdir -p -- ../../include make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' mkdir -p -- ../../../include/R_ext make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regcomp.c -o regcomp.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regerror.c -o regerror.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c regexec.c -o regexec.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-ast.c -o tre-ast.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-compile.c -o tre-compile.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-approx.c -o tre-match-approx.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-backtrack.c -o tre-match-backtrack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-match-parallel.c -o tre-match-parallel.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-mem.c -o tre-mem.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-parse.c -o tre-parse.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c tre-stack.c -o tre-stack.o gcc -std=gnu99 -I. -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -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-PT7Nxy/r-base-4.1.2/src/extra/tre' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/appl' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c interv.c -o interv.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c maxcol.c -o maxcol.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pretty.c -o pretty.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c uncmin.c -o uncmin.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dchdc.f -o dchdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dpbfa.f -o dpbfa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dpbsl.f -o dpbsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dpoco.f -o dpoco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dpodi.f -o dpodi.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dpofa.f -o dpofa.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dposl.f -o dposl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dqrdc.f -o dqrdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dqrdc2.f -o dqrdc2.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dqrls.f -o dqrls.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dqrsl.f -o dqrsl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dqrutl.f -o dqrutl.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dsvdc.f -o dsvdc.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c dtrco.f -o dtrco.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/nmath' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c df.c -o df.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pcauchy.c -o pcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qcauchy.c -o qcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcauchy.c -o rcauchy.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbinom_mu.c -o qnbinom_mu.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnchisq.c -o pnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnchisq.c -o qnchisq.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dnbeta.c -o dnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnbeta.c -o pnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnbeta.c -o qnbeta.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnf.c -o pnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pnt.c -o pnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnf.c -o qnf.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qnt.c -o qnt.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ptukey.c -o ptukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qtukey.c -o qtukey.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c toms708.c -o toms708.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c wilcox.c -o wilcox.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -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-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rembedded.c -o Rembedded.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dynload.c -o dynload.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c system.c -o system.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-unix.c -o sys-unix.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sys-std.c -o sys-std.o gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -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-PT7Nxy/r-base-4.1.2/src/unix' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/build/r-base-PT7Nxy/r-base-4.1.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 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 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-PT7Nxy/r-base-4.1.2/src/main' gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c CommandLineArgs.c -o CommandLineArgs.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rdynload.c -o Rdynload.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Renviron.c -o Renviron.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c RNG.c -o RNG.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c agrep.c -o agrep.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altclasses.c -o altclasses.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c altrep.c -o altrep.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c apply.c -o apply.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arithmetic.c -o arithmetic.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c array.c -o array.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c attrib.c -o attrib.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bind.c -o bind.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c builtin.c -o builtin.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c character.c -o character.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c coerce.c -o coerce.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complex.c -o complex.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c connections.c -o connections.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c context.c -o context.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cum.c -o cum.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dcf.c -o dcf.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c datetime.c -o datetime.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c debug.c -o debug.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deparse.c -o deparse.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devices.c -o devices.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dotcode.c -o dotcode.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dounzip.c -o dounzip.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dstruct.c -o dstruct.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c duplicate.c -o duplicate.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c edit.c -o edit.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c engine.c -o engine.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c envir.c -o envir.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c errors.c -o errors.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c eval.c -o eval.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c format.c -o format.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gevents.c -o gevents.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gram.c -o gram.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gram-ex.c -o gram-ex.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c graphics.c -o graphics.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grep.c -o grep.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c identical.c -o identical.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inlined.c -o inlined.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c inspect.c -o inspect.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c internet.c -o internet.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c iosupport.c -o iosupport.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lapack.c -o lapack.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c list.c -o list.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c localecharset.c -o localecharset.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c logic.c -o logic.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c main.c -o main.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mapply.c -o mapply.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c match.c -o match.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c memory.c -o memory.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c names.c -o names.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c objects.c -o objects.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c options.c -o options.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c paste.c -o paste.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c patterns.c -o patterns.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c platform.c -o platform.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot.c -o plot.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plotmath.c -o plotmath.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c print.c -o print.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printarray.c -o printarray.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printvector.c -o printvector.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c printutils.c -o printutils.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c qsort.c -o qsort.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c radixsort.c -o radixsort.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c raw.c -o raw.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c registration.c -o registration.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c relop.c -o relop.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rlocale.c -o rlocale.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c saveload.c -o saveload.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c scan.c -o scan.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c seq.c -o seq.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c serialize.c -o serialize.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sort.c -o sort.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c source.c -o source.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c split.c -o split.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sprintf.c -o sprintf.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c startup.c -o startup.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subassign.c -o subassign.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subscript.c -o subscript.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c subset.c -o subset.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c summary.c -o summary.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sysutils.c -o sysutils.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c times.c -o times.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unique.c -o unique.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c version.c -o version.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_alab_her.c -o g_alab_her.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_cntrlify.c -o g_cntrlify.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_fontdb.c -o g_fontdb.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c g_her_glyph.c -o g_her_glyph.o gfortran -fno-optimize-sibling-calls -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c xxxpr.f -o xxxpr.o gcc -std=gnu99 -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 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 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-PT7Nxy/r-base-4.1.2/src/main' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/bin/exec mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/lib make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmain.c -o Rmain.o gcc -std=gnu99 -Wl,--export-dynamic -fopenmp -L"../../lib" -Wl,-z,relro -o R.bin Rmain.o -lR make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 nanoftp.d from nanoftp.c making nanohttp.d from nanohttp.c making sock.d from sock.c making sockconn.d from sockconn.c make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rhttpd.c -o Rhttpd.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c Rsock.c -o Rsock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c internet.c -o internet.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c libcurl.c -o libcurl.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanoftp.c -o nanoftp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c nanohttp.c -o nanohttp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sock.c -o sock.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -fvisibility=hidden -c sockconn.c -o sockconn.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o internet.so Rhttpd.o Rsock.o internet.o libcurl.o nanoftp.o nanohttp.o sock.o sockconn.o -lcurl -lR make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/modules make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' making Lapack.d from Lapack.c make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -DHAVE_CONFIG_H -fopenmp -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Lapack.c -o Lapack.o gcc -std=gnu99 -shared -L"../../../lib" -Wl,-z,relro -o lapack.so Lapack.o -lR -llapack -lblas -lgfortran -lm -lquadmath make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/modules/X11' gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devX11.c -o devX11.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rotated.c -o rotated.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rbitmap.c -o rbitmap.o gcc -std=gnu99 -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 -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dataentry.c -o dataentry.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' mkdir -p -- ../../library make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' building system startup profile mkdir -p -- ../../../library/base/R make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' building package 'translations' mkdir -p -- ../../../library/translations make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' mkdir -p -- ../../../library/base/demo make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' building package 'tools' mkdir -p -- ../../../library/tools make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' mkdir -p -- ../../../library/tools/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c text.c -o text.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Rmd5.c -o Rmd5.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c md5.c -o md5.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c signals.c -o signals.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c install.c -o install.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c getfmts.c -o getfmts.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c http.c -o http.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramLatex.c -o gramLatex.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gramRd.c -o gramRd.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pdscan.c -o pdscan.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/tools/src' mkdir -p -- ../../../../library/tools/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' building package 'compiler' mkdir -p -- ../../../library/compiler make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' mkdir -p -- ../../../library/compiler/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' byte-compiling package 'compiler' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' byte-compiling package 'base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' byte-compiling package 'tools' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' building package 'utils' mkdir -p -- ../../../library/utils mkdir -p -- ../../../library/utils/doc make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' mkdir -p -- ../../../library/utils/R mkdir -p -- ../../../library/utils/Sweave mkdir -p -- ../../../library/utils/misc make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c io.c -o io.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c size.c -o size.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sock.c -o sock.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o utils.so init.o io.o size.o sock.o stubs.o utils.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' mkdir -p -- ../../../../library/utils/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' byte-compiling package 'utils' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' building package 'grDevices' mkdir -p -- ../../../library/grDevices make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' mkdir -p -- ../../../library/grDevices/R mkdir -p -- ../../../library/grDevices/afm mkdir -p -- ../../../library/grDevices/enc mkdir -p -- ../../../library/grDevices/icc make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 devCairo.d from devCairo.c making devPicTeX.d from devPicTeX.c making devPS.d from devPS.c making devQuartz.d from devQuartz.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c axis_scales.c -o axis_scales.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chull.c -o chull.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devices.c -o devices.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stubs.c -o stubs.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c colors.c -o colors.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clippath.c -o clippath.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c patterns.c -o patterns.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mask.c -o mask.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devCairo.c -o devCairo.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPicTeX.c -o devPicTeX.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devPS.c -o devPS.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c devQuartz.c -o devQuartz.o gcc -std=gnu99 -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 devCairo.o devPicTeX.o devPS.o devQuartz.o -lz -L../../../../lib -lR make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' mkdir -p -- ../../../../library/grDevices/libs make[8]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' making cairoBM.d from cairoBM.c make[9]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cairoBM.c -o cairoBM.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' byte-compiling package 'grDevices' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' building package 'graphics' mkdir -p -- ../../../library/graphics make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' mkdir -p -- ../../../library/graphics/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c base.c -o base.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c graphics.c -o graphics.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c par.c -o par.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot.c -o plot.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c plot3d.c -o plot3d.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c stem.c -o stem.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/graphics/src' mkdir -p -- ../../../../library/graphics/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' byte-compiling package 'graphics' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' building package 'stats' mkdir -p -- ../../../library/stats make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' mkdir -p -- ../../../library/stats/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kmeans.c -o kmeans.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ansari.c -o ansari.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c bandwidths.c -o bandwidths.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c chisqsim.c -o chisqsim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c d2x2xk.c -o d2x2xk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fexact.c -o fexact.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c kendall.c -o kendall.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ks.c -o ks.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c line.c -o line.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c smooth.c -o smooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c prho.c -o prho.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c swilk.c -o swilk.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c ksmooth.c -o ksmooth.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loessc.c -o loessc.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c monoSpl.c -o monoSpl.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c isoreg.c -o isoreg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c Srunmed.c -o Srunmed.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c dblcen.c -o dblcen.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distance.c -o distance.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c hclust-utils.c -o hclust-utils.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c nls.c -o nls.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rWishart.c -o rWishart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c HoltWinters.c -o HoltWinters.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c PPsum.c -o PPsum.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c arima.c -o arima.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c burg.c -o burg.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c filter.c -o filter.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mAR.c -o mAR.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c pacf.c -o pacf.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c starma.c -o starma.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c port.c -o port.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c family.c -o family.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c sbart.c -o sbart.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c approx.c -o approx.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c loglin.c -o loglin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lowess.c -o lowess.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c massdist.c -o massdist.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c lm.c -o lm.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c complete_cases.c -o complete_cases.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c cov.c -o cov.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c deriv.c -o deriv.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fft.c -o fft.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fourier.c -o fourier.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c model.c -o model.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optim.c -o optim.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c optimize.c -o optimize.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c integrate.c -o integrate.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c random.c -o random.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c distn.c -o distn.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c zeroin.c -o zeroin.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rcont.c -o rcont.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fopenmp -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c influence.c -o influence.o gfortran -fno-optimize-sibling-calls -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c stl.f -o stl.o gfortran -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -c lminfl.f -o lminfl.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/stats/src' mkdir -p -- ../../../../library/stats/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' byte-compiling package 'stats' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' building package 'datasets' mkdir -p -- ../../../library/datasets make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' mkdir -p -- ../../../library/datasets/data make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' building package 'methods' mkdir -p -- ../../../library/methods make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' mkdir -p -- ../../../library/methods/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c do_substitute_direct.c -o do_substitute_direct.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c methods_list_dispatch.c -o methods_list_dispatch.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c slot.c -o slot.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c class_support.c -o class_support.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tests.c -o tests.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c utils.c -o utils.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/methods/src' mkdir -p -- ../../../../library/methods/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' byte-compiling package 'methods' initializing class and method definitions ... done make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' building package 'grid' mkdir -p -- ../../../library/grid mkdir -p -- ../../../library/grid/doc make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' mkdir -p -- ../../../library/grid/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 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 -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c clippath.c -o clippath.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c gpar.c -o gpar.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c grid.c -o grid.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c just.c -o just.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c layout.c -o layout.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c mask.c -o mask.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c matrix.c -o matrix.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c register.c -o register.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c state.c -o state.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c unit.c -o unit.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c util.c -o util.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c viewport.c -o viewport.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o grid.so clippath.o gpar.o grid.o just.o layout.o mask.o matrix.o register.o state.o unit.o util.o viewport.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' mkdir -p -- ../../../../library/grid/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' byte-compiling package 'grid' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' building package 'splines' mkdir -p -- ../../../library/splines make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' mkdir -p -- ../../../library/splines/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' making splines.d from splines.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c splines.c -o splines.o gcc -std=gnu99 -shared -L../../../../lib -Wl,-z,relro -o splines.so splines.o -L../../../../lib -lR make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' mkdir -p -- ../../../../library/splines/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' byte-compiling package 'splines' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' building package 'stats4' mkdir -p -- ../../../library/stats4 make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' mkdir -p -- ../../../library/stats4/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' byte-compiling package 'stats4' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' building package 'tcltk' mkdir -p -- ../../../library/tcltk/R make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' mkdir -p -- ../../../library/tcltk/exec make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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 -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk.c -o tcltk.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c tcltk_unix.c -o tcltk_unix.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' mkdir -p -- ../../../../library/tcltk/libs make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' byte-compiling package 'tcltk' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' building package 'parallel' mkdir -p -- ../../../library/parallel mkdir -p -- ../../../library/parallel/doc make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' mkdir -p -- ../../../library/parallel/R make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' making init.d from init.c making rngstream.d from rngstream.c making fork.d from fork.c gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c init.c -o init.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c rngstream.c -o rngstream.o gcc -std=gnu99 -I"../../../../include" -DNDEBUG -I../../../include -I../../../../src/include -DHAVE_CONFIG_H -fvisibility=hidden -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fork.c -o fork.o gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/library/parallel/src' mkdir -p -- ../../../../library/parallel/libs make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' byte-compiling package 'parallel' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' you should 'make docs' now ... make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' (cd src/nmath/standalone; \ /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ 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-PT7Nxy/r-base-4.1.2/src/nmath/standalone' (cd ../../include; /usr/bin/make Rmath.h) make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' Copying source files make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/nmath/standalone' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 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-o qchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qcauchy.c -o qcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rcauchy.c -o rcauchy.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time 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-I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H 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-Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlogis.c -o qlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlogis.c -o rlogis.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnchisq.c -o dnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnchisq.c -o pnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnchisq.c -o qnchisq.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbeta.c -o dnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbeta.c -o pnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbeta.c -o qnbeta.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnf.c -o pnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnt.c -o pnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnf.c -o qnf.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnt.c -o qnt.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ptukey.c -o ptukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qtukey.c -o qtukey.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c toms708.c -o toms708.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c wilcox.c -o wilcox.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c signrank.c -o signrank.lo gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c std_unif.c -o std_unif.lo gcc -std=gnu99 -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-PT7Nxy/r-base-4.1.2/src/nmath/standalone' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath/standalone' gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c mlutils.c -o mlutils.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c d1mach.c -o d1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c i1mach.c -o i1mach.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmax2.c -o fmax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fmin2.c -o fmin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fprec.c -o fprec.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fround.c -o fround.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ftrunc.c -o ftrunc.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sign.c -o sign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c fsign.c -o fsign.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imax2.c -o imax2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c imin2.c -o imin2.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c chebyshev.c -o chebyshev.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c log1p.c -o log1p.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgammacor.c -o lgammacor.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gammalims.c -o gammalims.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c stirlerr.c -o stirlerr.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bd0.c -o bd0.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma.c -o gamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lgamma.c -o lgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c gamma_cody.c -o gamma_cody.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c beta.c -o beta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c lbeta.c -o lbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c polygamma.c -o polygamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c cospi.c -o cospi.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_i.c -o bessel_i.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_j.c -o bessel_j.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_k.c -o bessel_k.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c bessel_y.c -o bessel_y.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c choose.c -o choose.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c snorm.c -o snorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c sexp.c -o sexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgamma.c -o dgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgamma.c -o pgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgamma.c -o qgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgamma.c -o rgamma.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbeta.c -o dbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbeta.c -o pbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbeta.c -o qbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbeta.c -o rbeta.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dunif.c -o dunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c punif.c -o punif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qunif.c -o qunif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c runif.c -o runif.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnorm.c -o dnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnorm.c -o pnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnorm.c -o qnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnorm.c -o rnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlnorm.c -o dlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plnorm.c -o plnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlnorm.c -o qlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlnorm.c -o rlnorm.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c df.c -o df.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pf.c -o pf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qf.c -o qf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rf.c -o rf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnf.c -o dnf.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dt.c -o dt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pt.c -o pt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qt.c -o qt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rt.c -o rt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnt.c -o dnt.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dchisq.c -o dchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pchisq.c -o pchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qchisq.c -o qchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rchisq.c -o rchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnchisq.c -o rnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dbinom.c -o dbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pbinom.c -o pbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qbinom.c -o qbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rbinom.c -o rbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rmultinom.c -o rmultinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dcauchy.c -o dcauchy.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H 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-fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dexp.c -o dexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pexp.c -o pexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qexp.c -o qexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rexp.c -o rexp.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dgeom.c -o dgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pgeom.c -o pgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qgeom.c -o qgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rgeom.c -o rgeom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dhyper.c -o dhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c phyper.c -o phyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qhyper.c -o qhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rhyper.c -o rhyper.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnbinom.c -o dnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pnbinom.c -o pnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom.c -o qnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qnbinom_mu.c -o qnbinom_mu.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rnbinom.c -o rnbinom.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dpois.c -o dpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c ppois.c -o ppois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qpois.c -o qpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rpois.c -o rpois.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dweibull.c -o dweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c pweibull.c -o pweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qweibull.c -o qweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rweibull.c -o rweibull.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dlogis.c -o dlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c plogis.c -o plogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c qlogis.c -o qlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c rlogis.c -o rlogis.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H -DMATHLIB_STANDALONE -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -c dnchisq.c -o dnchisq.o gcc -std=gnu99 -I. -I../../../src/include -I../../../src/include -I./.. -DHAVE_CONFIG_H 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'/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -std=gnu11 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/build/r-base-PT7Nxy/r-base-4.1.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' /build/r-base-PT7Nxy/r-base-4.1.2/lib/libR.so is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' /build/r-base-PT7Nxy/r-base-4.1.2/bin/exec/R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' /build/r-base-PT7Nxy/r-base-4.1.2/modules/R_X11.so is unchanged /build/r-base-PT7Nxy/r-base-4.1.2/modules/R_de.so is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' building system startup profile make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' building package 'translations' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' you should 'make docs' now ... make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' creating doc/NEWS creating doc/NEWS.pdf make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' creating doc/manual/R-FAQ.html creating doc/manual/version.texi 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-PT7Nxy/r-base-4.1.2/doc/html' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' installing parsed Rd make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' base stats utils methods graphics grDevices datasets grid tools tcltk splines stats4 compiler parallel make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' building/updating package metadata ... make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' writing package indices make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' /usr/bin/make javaconf make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[3]: Nothing to be done for 'R'. make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' make[4]: Nothing to be done for 'R'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: 'Makedeps' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[5]: 'libtre.a' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[4]: 'libappl.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' #@/usr/bin/make install-Linpack make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/appl' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[4]: 'libnmath.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: 'libunix.a' is up to date. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -std=gnu11 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/build/r-base-PT7Nxy/r-base-4.1.2"' \ -o Rscript ./Rscript.c make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' /build/r-base-PT7Nxy/r-base-4.1.2/lib/libR.so is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' /build/r-base-PT7Nxy/r-base-4.1.2/bin/exec/R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[5]: 'internet.so' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[5]: 'lapack.so' is up to date. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/src/modules/X11' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' /build/r-base-PT7Nxy/r-base-4.1.2/modules/R_X11.so is unchanged /build/r-base-PT7Nxy/r-base-4.1.2/modules/R_de.so is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' building system startup profile make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/profile' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' building package 'translations' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/translations' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' building package 'base' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' building package 'tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' ../../../../library/tools/libs/tools.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' building package 'compiler' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/compiler' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Nothing to be done for 'mklazycomp'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tools' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' building package 'utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' all.R is unchanged make[5]: Nothing to be done for 'iconvlist'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' ../../../../library/utils/libs/utils.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' installing 'sysdata.rda' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/utils' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' building package 'grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' ../../../../library/grDevices/libs/grDevices.so is unchanged make[8]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[9]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[10]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[10]: 'cairo.so' is up to date. make[10]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[9]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[8]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src/cairo' make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grDevices' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' building package 'graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' ../../../../library/graphics/libs/graphics.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/graphics' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' building package 'stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' ../../../../library/stats/libs/stats.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' building package 'datasets' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/datasets' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' building package 'methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' ../../../../library/methods/libs/methods.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[5]: Nothing to be done for 'RfilesLazy'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/methods' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' building package 'grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' ../../../../library/grid/libs/grid.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/grid' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' building package 'splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' ../../../../library/splines/libs/splines.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/splines' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' building package 'stats4' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/stats4' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' building package 'tcltk' all.R is unchanged make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' ../../../../library/tcltk/libs/tcltk.so is unchanged make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk/src' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/tcltk' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' building package 'parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' all.R is unchanged make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[6]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[7]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' ../../../../library/parallel/libs/parallel.so is unchanged make[7]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[6]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel/src' make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[5]: Nothing to be done for 'mklazycomp'. make[5]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/parallel' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library/base' installing parsed NAMESPACE files make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[2]: Nothing to be done for 'R'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' configuring Java ... Java interpreter : /usr/lib/jvm/default-java/bin/java Java version : 11.0.13 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 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 make[3]: Entering directory '/tmp/Rjavareconf.tKB8JV' gcc -std=gnu99 -std=gnu11 -I"/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c conftest.c -o conftest.o gcc -std=gnu99 -std=gnu11 -shared -L/build/r-base-PT7Nxy/r-base-4.1.2/lib -Wl,-z,relro -o conftest.so conftest.o -L/usr/lib/jvm/default-java/lib/server -ljvm -L/build/r-base-PT7Nxy/r-base-4.1.2/lib -lR make[3]: Leaving directory '/tmp/Rjavareconf.tKB8JV' 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-PT7Nxy/r-base-4.1.2 Done. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' touch make-arch-stamp fakeroot debian/rules binary-arch *** install-arch *** dh_testdir dh_testroot dh_prep -a dh_installdirs -A /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core /usr/bin/make DESTDIR=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core install make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/m4' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tools' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' installing doc ... mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/man/man1 make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' installing doc/html ... mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc/html make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/html' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' installing doc/manual ... mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc/manual mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc/manual/images make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/etc installing etc ... make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/etc' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' installing share ... mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/R mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/dictionaries mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/encodings mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/java mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/licenses mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/make mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/Rd mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/Rd/macros mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/sh mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/texmf mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/texmf/bibtex/bib mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/texmf/bibtex/bst mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/texmf/tex/latex make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/share' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/bin make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/scripts' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/include/R_ext make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include/R_ext' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/blas' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/blas' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/extra/tre' make[4]: Nothing to be done for 'install'. make[4]: Leaving directory 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Nothing to be done for 'install'. make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -std=gnu11 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/pkgconfig make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/bin/exec make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/lib make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/main' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/modules make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/internet' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/lapack' make[4]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[4]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules/X11' make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/modules' make[3]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/library installing packages ... building HTML index ... make[3]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/library' make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[2]: Nothing to be done for 'install'. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/tests' make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' (cd src/unix; \ rm -vf Rscript /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/Rscript; \ /usr/bin/make CFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ CXXFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT" \ FFLAGS="-g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -D_REENTRANT" \ CC="gcc -std=gnu99" \ CXX=g++ \ F77=gfortran \ RHOME=/usr/lib/R \ DESTDIR=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core \ install-Rscript ) removed 'Rscript' removed '/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/Rscript' make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' gcc -std=gnu99 -I. -I../../src/include -I../../src/include -DHAVE_CONFIG_H -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -D_REENTRANT -Wl,-z,relro -DR_HOME='"/usr/lib/R"' \ -o Rscript ./Rscript.c make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/unix' #ls -ltr /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/ #strings src/unix/Rscript cp -vax src/unix/Rscript /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/ 'src/unix/Rscript' -> '/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/Rscript' #ls -ltr /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/ #strings /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/bin/Rscript (cd src/nmath/standalone; \ /usr/bin/make DESTDIR=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core install ) make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath/standalone' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' make[2]: 'Rmath.h' is up to date. make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/include' /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/include/Rmath.h is unchanged make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/src/nmath/standalone' chmod a+x /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/share/sh/echo.sh rm -v /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/COPYING removed '/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/COPYING' (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/; \ ln -s ../../share/common-licenses/GPL-2 COPYING) rm -v /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc/COPYING removed '/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc/COPYING' (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc; \ ln -s ../../../share/common-licenses/GPL-2 COPYING) (cd /build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr \ rdocdir=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/R/doc \ install-pdf make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' creating doc/manual/version.tex collecting LaTeX docs for package 'base' ... Converting parsed Rd's to LaTeX ........................................... collecting LaTeX docs for package 'tools' ... Converting parsed Rd's to LaTeX ...... collecting LaTeX docs for package 'utils' ... Converting parsed Rd's to LaTeX ............... collecting LaTeX docs for package 'grDevices' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'graphics' ... Converting parsed Rd's to LaTeX ....... collecting LaTeX docs for package 'stats' ... Converting parsed Rd's to LaTeX ............................... collecting LaTeX docs for package 'datasets' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'methods' ... Converting parsed Rd's to LaTeX ........ collecting LaTeX docs for package 'grid' ... Converting parsed Rd's to LaTeX ......... collecting LaTeX docs for package 'splines' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'stats4' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'tcltk' ... Converting parsed Rd's to LaTeX . collecting LaTeX docs for package 'compiler' ... Converting parsed Rd's to LaTeX collecting LaTeX docs for package 'parallel' ... Converting parsed Rd's to LaTeX . PDF/LaTeX documentation: full reference index ... 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 (./fullrefman.tex LaTeX2e <2021-06-01> patch level 1 L3 programming layer <2021-08-27> (/usr/share/texlive/texmf-dist/tex/latex/base/book.cls Document Class: book 2021/02/12 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/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/iftex/iftex.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 377. Package hyperref Warning: Option `pagebackref' has already been used, (hyperref) setting the option has no effect on input line 377. ) (/usr/share/texlive/texmf-dist/tex/latex/base/inputenc.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphicx.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/graphics.sty (/usr/share/texlive/texmf-dist/tex/latex/graphics/trig.sty) (/usr/share/texlive/texmf-dist/tex/latex/graphics-cfg/graphics.cfg))) (/usr/share/texlive/texmf-dist/tex/latex/base/makeidx.sty) Writing index file fullrefman.idx (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1ptm.fd) (/usr/share/texlive/texmf-dist/tex/latex/l3backend/l3backend-pdftex.def) No file fullrefman.aux. (/usr/share/texlive/texmf-dist/tex/context/base/mkii/supp-pdf.mkii [Loading MPS to PDF converter (version 2006.09.02).] ) (/usr/share/texlive/texmf-dist/tex/latex/epstopdf-pkg/epstopdf-base.sty (/usr/share/texlive/texmf-dist/tex/latex/latexconfig/epstopdf-sys.cfg)) (/usr/share/texlive/texmf-dist/tex/latex/hyperref/nameref.sty (/usr/share/texlive/texmf-dist/tex/latex/refcount/refcount.sty) (/usr/share/texlive/texmf-dist/tex/generic/gettitlestring/gettitlestring.sty)) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/t1phv.fd) (./version.tex) (/usr/share/texlive/texmf-dist/tex/latex/psnfss/ts1ptm.fd) [1{/var/lib/texmf/fo nts/map/pdftex/updmap/pdftex.map}] [1] [2] (./base-pkg.tex Chapter 1. (/usr/share/texlive/texmf-dist/tex/latex/inconsolata/t1zi4.fd) [1] [2] Underfull \hbox (badness 6995) 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 \T1/pt m/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/zi4/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/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 212--217 []\T1/ptm/m/n/10 when [][]\T1/zi4/m/n/10 capabilities[][][]("long.double") \T1/ ptm/m/n/10 is true, there are 10 such Underfull \hbox (badness 1675) in paragraph at lines 212--217 \T1/zi4/m/n/10 "longdouble." \T1/ptm/m/n/10 val-ues, spec-i-fy-ing the \T 1/zi4/m/n/10 long double \T1/ptm/m/n/10 prop-erty cor- [5] Underfull \hbox (badness 1178) in paragraph at lines 322--325 []\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 561--567 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/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 1567--1573 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2045--2045 []\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] Underfull \hbox (badness 10000) in paragraph at lines 2492--2494 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2495--2500 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2495--2500 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] Underfull \hbox (badness 2521) in paragraph at lines 5180--5182 []\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 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6371--6371 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [100] [101] [102] [103] [104] [105] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6837--6840 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 7020--7023 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [109] [110] Underfull \hbox (badness 6063) in paragraph at lines 7202--7208 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [111] Underfull \hbox (badness 1303) in paragraph at lines 7264--7271 []\T1/zi4/m/n/10 file \T1/ptm/m/n/10 can be used with \T1/zi4/m/n/10 descriptio n = "clipboard" \T1/ptm/m/n/10 in mode \T1/zi4/m/n/10 "r" \T1/ptm/m/n/10 only. This reads the Underfull \hbox (badness 2111) in paragraph at lines 7275--7280 []\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 [112] [113] Underfull \vbox (badness 3803) has occurred while \output is active [114] Underfull \vbox (badness 10000) has occurred while \output is active [115] [116] Underfull \hbox (badness 1077) in paragraph at lines 7593--7599 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7593--7599 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [117] [118] [119] [120] [121] [122] Underfull \hbox (badness 2096) in paragraph at lines 7948--7952 \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 . [123] [124] Underfull \hbox (badness 2351) in paragraph at lines 8062--8065 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-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 table[][][]\T 1/ptm/m/n/10 , [125] [126] [127] [128] [129] Underfull \hbox (badness 4479) in paragraph at lines 8388--8399 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [130] [131] [132] [133] [134] [135] [136] Underfull \hbox (badness 1629) in paragraph at lines 8839--8851 []\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 1609) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] 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 ato mic 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- [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] Underfull \hbox (badness 6396) in paragraph at lines 11228--11236 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 11228--11236 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] Underfull \hbox (badness 4569) in paragraph at lines 12377--12381 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 12377--12381 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [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] Underfull \hbox (badness 2253) in paragraph at lines 14062--14064 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [215] Underfull \hbox (badness 1565) in paragraph at lines 14138--14142 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [216] Underfull \hbox (badness 4927) in paragraph at lines 14182--14184 []\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 = [217] [218] Underfull \hbox (badness 3148) in paragraph at lines 14284--14289 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\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 . Con-sider Underfull \hbox (badness 1466) in paragraph at lines 14331--14334 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 14458--14462 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\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 14469--14472 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [221] [222] [223] [224] [225] Underfull \hbox (badness 3965) in paragraph at lines 14766--14770 []\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, [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] Underfull \hbox (badness 4429) in paragraph at lines 15546--15549 []\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 [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 15652--15654 []\T1/ptm/m/n/10 This works via \T1/zi4/m/n/10 prettyNum()\T1/ptm/m/n/10 , whic h calls Underfull \hbox (badness 1215) in paragraph at lines 15652--15654 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero) \T1/ptm/m/n/10 three times in this case, see Underfull \hbox (badness 10000) in paragraph at lines 15674--15679 []\T1/ptm/m/n/10 For num-bers, \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 calls \T 1/zi4/m/n/10 prettyNum() \T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 1558) in paragraph at lines 15674--15679 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero)\T1/ptm/m/n/10 . (\T1/ptm/m /it/10 ``when needed''\T1/ptm/m/n/10 : when \T1/zi4/m/n/10 zero.print \T1/ptm/m /n/10 is not Underfull \hbox (badness 10000) in paragraph at lines 15686--15690 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15686--15690 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want [240] Underfull \hbox (badness 2035) in paragraph at lines 15725--15729 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [241] Underfull \vbox (badness 10000) has occurred while \output is active [242] [243] [244] [245] [246] [247] [248] [249] [250] Underfull \hbox (badness 2452) in paragraph at lines 16338--16342 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent 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 16338--16342 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds 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 [251] [252] Underfull \hbox (badness 1092) in paragraph at lines 16511--16516 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [253] [254] [255] [256] Underfull \hbox (badness 6741) in paragraph at lines 16764--16768 \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/ptm/m/n/10 , [257] [258] [259] [260] [261] [262] [263] [264] [265] [266] Underfull \vbox (badness 10000) has occurred while \output is active [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] Underfull \hbox (badness 1478) in paragraph at lines 18113--18116 []\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 [278] [279] [280] [281] Underfull \hbox (badness 10000) in paragraph at lines 18381--18383 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1442) in paragraph at lines 18980--18982 []\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 [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19311--19317 [296] [297] [298] [299] Underfull \hbox (badness 1248) in paragraph at lines 19556--19559 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\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 , [300] [301] [302] [303] Underfull \hbox (badness 4739) in paragraph at lines 19819--19821 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [304] [305] [306] [307] Underfull \hbox (badness 1603) in paragraph at lines 20046--20049 []\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 . [308] [309] [310] Underfull \hbox (badness 1596) in paragraph at lines 20273--20278 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] Underfull \hbox (badness 2469) in paragraph at lines 20878--20883 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and [321] Underfull \hbox (badness 10000) in paragraph at lines 20972--20976 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory [322] [323] [324] Underfull \hbox (badness 1014) in paragraph at lines 21142--21147 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] Underfull \hbox (badness 1264) in paragraph at lines 21991--21996 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [338] Underfull \hbox (badness 4441) in paragraph at lines 22020--22023 []\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/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] Underfull \hbox (badness 6047) in paragraph at lines 22794--22796 []\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)) == [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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 : [368] [369] [370] [371] [372] [373] [374] Underfull \hbox (badness 2790) in paragraph at lines 24375--24378 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24375--24378 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [375] [376] [377] [378] [379] Underfull \hbox (badness 1194) in paragraph at lines 24664--24667 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [380] [381] [382] Underfull \hbox (badness 2368) in paragraph at lines 24871--24877 []\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-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24871--24877 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [383] [384] [385] [386] [387] [388] Underfull \hbox (badness 10000) in paragraph at lines 25256--25259 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] Underfull \hbox (badness 10000) in paragraph at lines 25876--25878 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1038) in paragraph at lines 26737--26745 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 26746--26749 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are [411] Underfull \hbox (badness 6220) in paragraph at lines 26770--26772 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [412] Underfull \hbox (badness 2142) in paragraph at lines 26911--26915 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [413] Underfull \hbox (badness 1968) in paragraph at lines 26968--26973 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 27262--27268 []\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 27262--27268 \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 27262--27268 \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 27275--27278 []\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/ptm/m/n/10 and [417] Underfull \hbox (badness 2689) in paragraph at lines 27301--27303 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 27336--27341 []\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 27342--27353 \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 27342--27353 \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 use and Underfull \hbox (badness 7203) in paragraph at lines 27354--27357 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and [418] [419] Underfull \vbox (badness 3803) has occurred while \output is active [420] [421] [422] [423] [424] [425] Underfull \hbox (badness 10000) in paragraph at lines 27901--27904 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [426] Underfull \hbox (badness 7925) in paragraph at lines 27982--27986 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \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 1622) in paragraph at lines 27982--27986 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] [427] Underfull \hbox (badness 6125) in paragraph at lines 27987--27996 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] Underfull \hbox (badness 2726) in paragraph at lines 28935--28938 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [443] [444] [445] [446] [447] [448] [449] [450] [451] [452] [453] [454] Underfull \hbox (badness 1603) in paragraph at lines 29685--29688 []\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 [][]$\T1/zi4/m/n/10 https : / / www . [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] Underfull \hbox (badness 1533) in paragraph at lines 30713--30716 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [470] [471] [472] Underfull \hbox (badness 1163) in paragraph at lines 30876--30887 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [473] [474] [475] [476] [477] [478] [479] Underfull \vbox (badness 10000) has occurred while \output is active [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] Underfull \hbox (badness 10000) in paragraph at lines 32539--32543 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32539--32543 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32560--32562 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32563--32567 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 pcre2pattern \T1/ptm/m/n/10 or \T1/zi4/m/n/ 10 pcrepattern man \T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m/n/10 ht tps : / / www . pcre . org / [499] [500] Underfull \vbox (badness 10000) has occurred while \output is active [501] [502] [503] [504] [505] [506] [507] [508] Underfull \hbox (badness 1655) in paragraph at lines 33157--33159 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] Underfull \hbox (badness 2261) in paragraph at lines 34349--34354 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [527] Underfull \hbox (badness 10000) in paragraph at lines 34376--34382 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 34376--34382 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 10000) in paragraph at lines 36987--36989 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [568] Underfull \vbox (badness 10000) has occurred while \output is active [569] [570] [571] [572] [573] [574] [575] [576] Underfull \hbox (badness 1072) in paragraph at lines 37584--37588 []\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 37589--37593 []\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/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', [577] Underfull \hbox (badness 10000) in paragraph at lines 37619--37625 []\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 37619--37625 \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 37619--37625 \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 37634--37641 []\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 37634--37641 \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 37634--37641 \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 37634--37641 \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 [578] [579] [580] Underfull \hbox (badness 2644) in paragraph at lines 37866--37870 []\T1/ptm/m/n/10 alternative to \T1/zi4/m/n/10 exprs \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 ...\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [581] [582] [583] Underfull \hbox (badness 1142) in paragraph at lines 38018--38024 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] Underfull \hbox (badness 1565) in paragraph at lines 39297--39299 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] Underfull \hbox (badness 1137) in paragraph at lines 39887--39893 []\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 Underfull \hbox (badness 4967) in paragraph at lines 39906--39911 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [614] [615] Underfull \hbox (badness 1616) in paragraph at lines 40026--40031 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 1472) in paragraph at lines 40568--40571 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [625] [626] [627] [628] [629] [630] [631] [632] [633] [634] [635] [636] [637] Underfull \vbox (badness 3803) has occurred while \output is active [638] Underfull \hbox (badness 10000) in paragraph at lines 41487--41491 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41738--41741 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [643] [644] [645] Underfull \hbox (badness 10000) in paragraph at lines 41922--41926 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [646] [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 10000) in paragraph at lines 42547--42550 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [655] [656] [657] [658] [659] [660] Underfull \vbox (badness 10000) has occurred while \output is active [661] [662] [663] [664] [665] [666] [667] [668] Underfull \hbox (badness 1990) in paragraph at lines 43469--43477 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43469--43477 \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 [669] [670] [671] [672] [673] [674] [675] [676] Underfull \hbox (badness 1917) in paragraph at lines 43975--43982 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 2452) in paragraph at lines 44428--44434 [][][]\T1/zi4/m/n/10 file[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.access[ ][][]\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 , [684] [685] [686] [687] [688] [689] Underfull \hbox (badness 3668) in paragraph at lines 44802--44804 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [690] [691] Underfull \hbox (badness 2401) in paragraph at lines 44932--44936 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [692] [693] [694] Underfull \hbox (badness 2111) in paragraph at lines 45139--45144 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 45160--45165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [695] [696] [697] [698] Underfull \hbox (badness 4001) in paragraph at lines 45385--45387 []\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 . [699] [700] [701] [702] [703] Underfull \hbox (badness 5417) in paragraph at lines 45750--45754 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [704] Underfull \hbox (badness 10000) in paragraph at lines 45811--45815 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [705] [706]) (./compiler-pkg.tex Chapter 2. [707] [708] [709] [710]) (./datasets-pkg.tex Chapter 3. [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] 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. [728] [729] [730] [731] [732] [733] [734] [735] [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]) (./grDevices-pkg.tex [794] Chapter 4. [795] [796] [797] [798] [799] Underfull \hbox (badness 3158) 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/ptm/m/n/1 0 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 [800] [801] [802] [803] [804] [805] [806] [807] [808] [809] 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) and \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i -fied as [810] [811] [812] [813] 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 [814] [815] 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 / [816] [817] Underfull \hbox (badness 1852) in paragraph at lines 1405--1408 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [818] [819] [820] 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 \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [821] [822] [823] [824] [825] [826] Underfull \hbox (badness 1325) in paragraph at lines 2017--2027 \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 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [827] [828] Underfull \hbox (badness 10000) in paragraph at lines 2129--2131 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [829] [830] [831] Underfull \hbox (badness 6758) in paragraph at lines 2308--2311 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] Underfull \hbox (badness 10000) in paragraph at lines 2919--2920 [842] [843] [844] [845] [846] [847] [848] [849] [850] Underfull \hbox (badness 10000) in paragraph at lines 3493--3498 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [851] [852] [853] Underfull \vbox (badness 3803) has occurred while \output is active [854] [855] [856] [857] Underfull \vbox (badness 3803) has occurred while \output is active [858] Underfull \hbox (badness 10000) in paragraph at lines 3992--3995 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [859] [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / conte nt / dam / acom / en / devnet / acrobat / pdfs / pdf _ Underfull \hbox (badness 1881) in paragraph at lines 4732--4737 \T1/zi4/m/n/10 reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in dec-i-mal, oc -tal and hex at [][]$\T1/zi4/m/n/10 https : / / www . stat . auckland . ac . [870] [871] [872] Underfull \hbox (badness 1584) in paragraph at lines 4888--4890 []\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 4892--4899 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [873] [874] [875] [876] Underfull \hbox (badness 1377) in paragraph at lines 5198--5203 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [877] Underfull \hbox (badness 1418) in paragraph at lines 5274--5281 \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 "Helvetica-Narrow"\T1/ptm /m/n/10 , [878] Underfull \hbox (badness 1755) in paragraph at lines 5292--5294 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [879] Underfull \hbox (badness 1377) in paragraph at lines 5403--5408 []\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 [880] Underfull \hbox (badness 7344) in paragraph at lines 5472--5474 []\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 [881] Underfull \vbox (badness 3803) has occurred while \output is active [882] Underfull \hbox (badness 2035) in paragraph at lines 5610--5619 []\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 5610--5619 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "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-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5610--5619 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [883] [884] Underfull \hbox (badness 10000) in paragraph at lines 5678--5680 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [885] [886] Underfull \hbox (badness 1546) in paragraph at lines 5820--5828 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/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 , [887] [888] [889] [890] [891] [892] [893] [894] Underfull \hbox (badness 10000) in paragraph at lines 6358--6361 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [895] [896] Underfull \vbox (badness 3803) has occurred while \output is active [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1189) in paragraph at lines 7184--7186 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [909] Underfull \hbox (badness 10000) in paragraph at lines 7289--7291 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [910] [911] [912] [913] [914] Underfull \hbox (badness 3780) in paragraph at lines 7603--7609 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [915] [916] [917] Underfull \hbox (badness 2680) in paragraph at lines 7805--7807 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [918] [919] [920]) (./graphics-pkg.tex Chapter 5. [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] Overfull \hbox (12.71341pt too wide) in paragraph at lines 981--981 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 4634) in paragraph at lines 1355--1358 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] Underfull \hbox (badness 1728) in paragraph at lines 2333--2335 []\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 [960] Underfull \hbox (badness 1009) in paragraph at lines 2426--2433 \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 [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] Underfull \vbox (badness 10000) has occurred while \output is active [983] Underfull \vbox (badness 10000) has occurred while \output is active [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] Underfull \hbox (badness 3229) in paragraph at lines 4602--4607 []\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 [996] [997] [998] [999] [1000] Underfull \hbox (badness 10000) in paragraph at lines 5032--5038 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 5032--5038 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [1001] [1002] Underfull \hbox (badness 10000) in paragraph at lines 5163--5166 [1003 ] Underfull \hbox (badness 10000) in paragraph at lines 5224--5226 Underfull \vbox (badness 10000) has occurred while \output is active [1004] [1005 ] [1006] Underfull \hbox (badness 10000) in paragraph at lines 5414--5416 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [1007] Underfull \vbox (badness 3803) has occurred while \output is active [1008] [1009] [1010] [1011] [1012] [1013] [1014]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5896 \aliasA{plot}{plot.default}{plot} [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6801--6802 [][] [1029 ] [1030] Underfull \vbox (badness 3803) has occurred while \output is active [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] Underfull \hbox (badness 2012) in paragraph at lines 7623--7626 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] Underfull \hbox (badness 10000) in paragraph at lines 8889--8891 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8891--8893 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1064]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8971 \HeaderA{units}{Graphical Units}{units} [1065] [1066] [1067] [1068]) (./grid-pkg.tex Chapter 6. [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] Underfull \hbox (badness 2680) in paragraph at lines 486--489 []\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-cu-la-tio n of [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 4279) in paragraph at lines 1112--1121 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/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 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [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] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] Underfull \hbox (badness 1067) in paragraph at lines 4537--4540 []\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 [1147] [1148] [1149] [1150] Underfull \hbox (badness 7256) in paragraph at lines 4782--4784 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] Underfull \hbox (badness 1824) in paragraph at lines 6753--6756 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1185] [1186] [1187] [1188]) (./methods-pkg.tex Chapter 7. [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] Underfull \vbox (badness 10000) has occurred while \output is active [1197] Underfull \vbox (badness 10000) has occurred while \output is active [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] 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-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1216] 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 c an 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/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1217] [1218] [1219] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\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 = [1220] [1221] [1222] [1223] [1224] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1225] [1226] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1227] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1235] [1236] [1237] [1238] [1239] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1240] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1241] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\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 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] Underfull \vbox (badness 10000) has occurred while \output is active [1263] [1264] [1265] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\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 [1266] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1267] [1268] [1269] [1270] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\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 [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1279] [1280] [1281] [1282] Underfull \vbox (badness 10000) has occurred while \output is active [1283] [1284] [1285] [1286]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1287] [1288] [1289]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1290] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\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 [1291] [1292] [1293] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] Underfull \vbox (badness 10000) has occurred while \output is active [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1329] [1330] [1331] [1332] [1333] [1334] [1335] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\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., [1336] [1337] [1338] [1339]) (./parallel-pkg.tex [1340] 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/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1341] [1342] [1343] [1344] [1345] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] Underfull \hbox (badness 3386) in paragraph at lines 1401--1404 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1363] [1364] [1365]) (./splines-pkg.tex [1366] 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 [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382]) (./stats-pkg.tex Chapter 10. [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 1412) in paragraph at lines 882--884 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2503) in paragraph at lines 1364--1367 []\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 , [1405] [1406] [1407] Underfull \hbox (badness 10000) in paragraph at lines 1544--1548 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 3514--3517 []\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 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1127) in paragraph at lines 4430--4433 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1454] [1455] [1456] [1457] [1458] Underfull \hbox (badness 3989) in paragraph at lines 4770--4777 []\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 = [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Underfull \hbox (badness 2556) in paragraph at lines 5406--5409 []\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 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5423--5425 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 2503) in paragraph at lines 5820--5824 []\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 , [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 7081) in paragraph at lines 6614--6617 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can 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 6618--6620 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1489] [1490] [1491] [1492] [1493] Underfull \vbox (badness 3803) has occurred while \output is active [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] Underfull \hbox (badness 10000) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \vbox (badness 10000) has occurred while \output is active [1524] [1525] [1526] [1527] [1528] Underfull \hbox (badness 2626) in paragraph at lines 9144--9147 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1529] [1530] Underfull \hbox (badness 2503) in paragraph at lines 9251--9255 []\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 , [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 4518) in paragraph at lines 10587--10592 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1551] [1552] [1553] [1554] [1555] Underfull \hbox (badness 2142) in paragraph at lines 10948--10951 []\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 ^^@ [1556] Underfull \hbox (badness 1253) in paragraph at lines 10967--10970 []\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, [1557] Underfull \hbox (badness 1708) in paragraph at lines 11029--11033 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 1694) in paragraph at lines 11425--11428 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11909 \aliasA{hat}{influence.measures}{hat} [1572] [1573] Underfull \hbox (badness 1484) in paragraph at lines 12051--12053 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] Underfull \hbox (badness 10000) in paragraph at lines 12650--12652 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1584] [1585] [1586] [1587] [1588] [1589] Underfull \hbox (badness 2894) in paragraph at lines 12986--12990 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4518) in paragraph at lines 13737--13742 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 4518) in paragraph at lines 14390--14395 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1611] [1612] [1613] Underfull \hbox (badness 8151) in paragraph at lines 14528--14532 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14535--14537 []\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 [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] Underfull \hbox (badness 2503) in paragraph at lines 15611--15615 []\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 , [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Underfull \hbox (badness 10000) in paragraph at lines 16124--16130 []\T1/zi4/m/n/10 model.extract(m,"offset") \T1/ptm/m/n/10 and \T1/zi4/m/n/10 mo del.extract(m,"response") \T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16124--16130 \T1/zi4/m/n/10 model.offset(m) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response (m) \T1/ptm/m/n/10 re-spec-tively. \T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 s ums any terms [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] Underfull \hbox (badness 1158) in paragraph at lines 17767--17770 []\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- [1666] [1667] Underfull \vbox (badness 3803) has occurred while \output is active [1668] Underfull \vbox (badness 10000) has occurred while \output is active [1669] Underfull \vbox (badness 10000) has occurred while \output is active [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1377) in paragraph at lines 18790--18795 []\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 18795--18798 []\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 18808--18812 []\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 18808--18812 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18816--18820 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1684] [1685] [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19041--19041 []\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 19044--19044 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1688] [1689] [1690] [1691] [1692] [1693] [1694] Underfull \hbox (badness 1337) in paragraph at lines 19503--19506 []\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 [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 3049) in paragraph at lines 20001--20005 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1704] [1705] [1706] [1707] Underfull \hbox (badness 1194) in paragraph at lines 20264--20267 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 2503) in paragraph at lines 20643--20646 []\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 , Underfull \hbox (badness 3919) in paragraph at lines 20670--20672 []\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 [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 10000) in paragraph at lines 21748--21754 []\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/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] [1755] Underfull \hbox (badness 1337) in paragraph at lines 23105--23111 []\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 [1756] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \hbox (badness 3780) in paragraph at lines 23530--23533 []\T1/ptm/m/n/10 used only when \T1/zi4/m/n/10 names \T1/ptm/m/n/10 is true: th e pre-ci-sion to use when for-mat- Underfull \hbox (badness 1152) in paragraph at lines 23530--23533 \T1/ptm/m/n/10 ting the per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-s ions up to 4.0.x, this had been set to [1763] Underfull \hbox (badness 10000) in paragraph at lines 23671--23672 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 10000) in paragraph at lines 23955--23958 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23955--23958 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] Underfull \hbox (badness 1824) in paragraph at lines 24632--24638 []\T1/ptm/m/n/10 Here, all the NAs in \T1/zi4/m/n/10 x \T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24632--24638 \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 [1780] Underfull \hbox (badness 10000) in paragraph at lines 24653--24656 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = Underfull \hbox (badness 3690) in paragraph at lines 24722--24726 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1781] Underfull \vbox (badness 3803) has occurred while \output is active [1782] [1783] [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 2165) in paragraph at lines 25234--25239 []\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/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1790] [1791] [1792] [1793] Underfull \hbox (badness 1867) in paragraph at lines 25439--25441 []\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 25454--25458 []\T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = use.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] Underfull \vbox (badness 10000) has occurred while \output is active [1818] Underfull \hbox (badness 3514) in paragraph at lines 27017--27022 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1819] [1820] [1821] [1822] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27251--27251 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1823] Underfull \hbox (badness 3514) in paragraph at lines 27287--27293 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1824] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27344--27344 []\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 27346--27346 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1825] [1826] [1827] Underfull \hbox (badness 3514) in paragraph at lines 27520--27525 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1828] [1829] Underfull \hbox (badness 3514) in paragraph at lines 27607--27612 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1830] Underfull \hbox (badness 3514) in paragraph at lines 27672--27677 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1831] [1832] Underfull \hbox (badness 3514) in paragraph at lines 27766--27771 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1833] Underfull \hbox (badness 6691) in paragraph at lines 27858--27863 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 4024) in paragraph at lines 28349--28352 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1842] [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] Underfull \hbox (badness 5431) in paragraph at lines 28955--28957 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1852] [1853] [1854] [1855] Underfull \hbox (badness 5431) in paragraph at lines 29165--29168 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 1337) in paragraph at lines 29480--29484 []\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 [1861] [1862] [1863] [1864] [1865] Underfull \hbox (badness 1616) in paragraph at lines 29792--29795 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] [1878] [1879] [1880] [1881] [1882] [1883] [1884] Underfull \hbox (badness 3557) in paragraph at lines 30927--30931 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1885] [1886] [1887] Underfull \vbox (badness 10000) has occurred while \output is active [1888] [1889] [1890] Underfull \hbox (badness 1337) in paragraph at lines 31291--31295 []\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 [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 1337) in paragraph at lines 31820--31824 []\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 Underfull \hbox (badness 10000) in paragraph at lines 31834--31836 []\T1/ptm/m/n/10 (when \T1/zi4/m/n/10 conf.int \T1/ptm/m/n/10 is true:) a pos-i -tive nu-meric tol-er-ance, used in [1900] [1901] [1902] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32027--32027 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1903] [1904] [1905] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32188--32188 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1906] [1907] [1908] [1909] [1910]) (./stats4-pkg.tex Chapter 11. [1911] [1912] [1913] Underfull \vbox (badness 10000) has occurred while \output is active [1914] Underfull \vbox (badness 10000) has occurred while \output is active [1915] [1916] [1917] [1918]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} [1919] [1920] [1921]) (./tcltk-pkg.tex [1922] Chapter 12. [1923] [1924] [1925] [1926] [1927] [1928] [1929] Underfull \vbox (badness 10000) has occurred while \output is active [1930] Underfull \vbox (badness 10000) has occurred while \output is active [1931] 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-ing any Tk or Tcl com-mand by sim-ply run-ning [1932] [1933] [1934] [1935] [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944]) (./tools-pkg.tex Chapter 13. [1945] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1946] 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 b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1947] [1948] 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 bibe ntry[][][] \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 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 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/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1949] [1950] 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-gine to use. Over-rides any [1951] 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 [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] [1961] [1962] [1963] 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 [1964] 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/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1965] [1966] [1967] [1968] [1969] 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, with its func-tion-al-ity in-te-grated into that of [1970] [1971] Underfull \hbox (badness 7981) in paragraph at lines 1707--1715 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of 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 [1972] [1973] [1974] [1975]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} [1976] [1977] [1978] [1979] [1980] 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}",[] [1981] [1982] [1983] Underfull \hbox (badness 7981) in paragraph at lines 2391--2399 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1984] [1985] [1986] [1987] [1988] [1989] [1990] 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. [1991] [1992] [1993] [1994] [1995] Underfull \hbox (badness 1424) in paragraph at lines 3177--3179 []\T1/zi4/m/it/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1996] [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004] [2005] [2006] Underfull \hbox (badness 10000) in paragraph at lines 3878--3880 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 4017--4020 []\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 [2009] [2010] Underfull \hbox (badness 1137) in paragraph at lines 4119--4121 []\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 [2011] [2012] [2013] [2014] [2015] Underfull \hbox (badness 1796) in paragraph at lines 4427--4432 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/it/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/it/10 type == [2016] Underfull \hbox (badness 1838) in paragraph at lines 4501--4507 []\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 4501--4507 \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 [2017] [2018] [2019] [2020] Underfull \hbox (badness 2197) in paragraph at lines 4776--4786 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/it/10 available.packages[][][]\T1/ptm/m/n/10 : [2021] Underfull \hbox (badness 1571) in paragraph at lines 4842--4846 []\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 [2022] [2023] [2024]) (./utils-pkg.tex Chapter 14. [2025] 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 `\T 1/zi4/m/it/10 insertions\T1/ptm/m/n/10 ', [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/zi4/m/it/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [2031] [2032] [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 720--726 []\T1/ptm/m/n/10 Functions \T1/zi4/m/it/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/it/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 720--726 \T1/zi4/m/it/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/it/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [2036] [2037] Underfull \hbox (badness 5847) in paragraph at lines 857--863 []\T1/ptm/m/n/10 Argument \T1/zi4/m/it/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 857--863 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/it/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [2038] Underfull \hbox (badness 3861) in paragraph at lines 925--930 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/it/10 "O S_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 , [2039] [2040] [2041] Underfull \hbox (badness 3323) in paragraph at lines 1108--1116 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/it/1 0 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 1108--1116 \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 1108--1116 \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 3735) in paragraph at lines 1108--1116 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/it/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1108--1116 \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 1120--1122 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] Underfull \hbox (badness 1371) in paragraph at lines 1625--1627 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2050] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1695. [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] Underfull \hbox (badness 2057) in paragraph at lines 2346--2348 []\T1/ptm/m/n/10 None for \T1/zi4/m/it/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2061] [2062] [2063] [2064] [2065] [2066]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2697 ... the Clipboard in MS Windows}{clipboard} [2067] [2068] [2069] Underfull \hbox (badness 1748) in paragraph at lines 2864--2867 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/it/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/it/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/it/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 5388) in paragraph at lines 3274--3278 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/it/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/it/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3279--3282 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/it/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[] [][](...,header = TRUE,sep = [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] Underfull \hbox (badness 1430) in paragraph at lines 4063--4071 []\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 [2088] Underfull \hbox (badness 1231) in paragraph at lines 4140--4152 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2089] [2090] Underfull \hbox (badness 10000) in paragraph at lines 4297--4299 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/it/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4995 ...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.4995 ...mat Unordered and Ordered Lists}{format} [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 1622) in paragraph at lines 5514--5518 []\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 [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \vbox (badness 3803) has occurred while \output is active [2118] [2119] [2120] [2121] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6232. Underfull \hbox (badness 1371) in paragraph at lines 6236--6238 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2122] Underfull \hbox (badness 1502) in paragraph at lines 6325--6330 []\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 6325--6330 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2123] [2124] [2125] Underfull \hbox (badness 10000) in paragraph at lines 6498--6507 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2126] Underfull \hbox (badness 2150) in paragraph at lines 6562--6565 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2127] [2128] Underfull \hbox (badness 3118) in paragraph at lines 6701--6703 []\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 [2129] [2130] [2131] Underfull \hbox (badness 1325) in paragraph at lines 6880--6884 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/it/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6892--6898 \T1/ptm/m/n/10 used if \T1/zi4/m/it/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2132] Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 \T1/ptm/m/n/10 passed to \T1/zi4/m/it/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., Underfull \hbox (badness 1424) in paragraph at lines 6972--6975 []\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 [2133] Underfull \hbox (badness 3219) in paragraph at lines 7043--7050 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/it/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7043--7050 \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 7043--7050 \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 7043--7050 [][]\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 silently Underfull \hbox (badness 2932) in paragraph at lines 7051--7054 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/it/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2134] Underfull \hbox (badness 1546) in paragraph at lines 7177--7180 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing \T1/zi4/m/it/10 available.pa ckages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 ,] \T1/ptm/m /n/10 will [2135] Underfull \hbox (badness 10000) in paragraph at lines 7210--7215 [][][]\T1/zi4/m/it/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/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 , [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] Underfull \hbox (badness 10000) in paragraph at lines 7997--7999 []\T1/ptm/m/n/10 typically the re-sult of \T1/zi4/m/it/10 methods(..)\T1/ptm/m/ n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] [2159] [2160] Underfull \hbox (badness 10000) in paragraph at lines 8735--8737 []\T1/ptm/m/n/10 for \T1/zi4/m/it/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/it/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8757--8762 []\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, [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] Underfull \hbox (badness 1248) in paragraph at lines 9283--9287 []\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 [2170] Underfull \hbox (badness 1789) in paragraph at lines 9363--9365 []\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 [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] Underfull \hbox (badness 1097) in paragraph at lines 10200--10203 []\T1/ptm/m/n/10 The name \T1/zi4/m/it/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2183] [2184] Underfull \hbox (badness 3000) in paragraph at lines 10336--10341 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/it/10 read.t able[][][]\T1/ptm/m/n/10 ; [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] Underfull \hbox (badness 2134) in paragraph at lines 10925--10930 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \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 ; [2194] Underfull \hbox (badness 10000) in paragraph at lines 10981--10986 []\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 10981--10986 \T1/zi4/m/it/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/it/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/it/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] Underfull \hbox (badness 2469) in paragraph at lines 11475--11479 []\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 11475--11479 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 4060) in paragraph at lines 11891--11894 []\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 var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 11914--11914 []\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 '[] [2210] [2211] [2212] [2213] Underfull \hbox (badness 2150) in paragraph at lines 12162--12164 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2214] [2215] [2216] [2217] Underfull \hbox (badness 10000) in paragraph at lines 12381--12385 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/it/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12412--12418 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2218] [2219] Underfull \hbox (badness 1009) in paragraph at lines 12606--12618 []\T1/ptm/m/n/10 Before each code chunk is eval-u-ated, zero or more hook func- tions can be ex-e-cuted. 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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.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 warning (dest): name{Rfn.stepAIC} has been referenced but does not exist , replaced by a fixed one pdfTeX warning (dest): name{Rfn.rinvGauss} has been referenced but does not exi st, replaced by a fixed one pdfTeX 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‘././nonexistent’: Permission denied mktexpk: Running mf-nowin -progname=mf \mode:=ljfour; mag:=1+0/600; nonstopmode; input tctt0900 This is METAFONT, Version 2.71828182 (TeX Live 2022/dev/Debian) (preloaded base=mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tctt0900.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exbase.mf) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/tctt.mf (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymb.mf Ok (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/exaccess.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txpseudo.mf Ok) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txaccent.mf Ok [0] [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [27] [29]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txgen.mf Ok [100] [109] [98] [99] [108]) (/usr/share/texlive/texmf-dist/fonts/source/jknappen/ec/txsymbol.mf Ok [13] [18] [21] [22] [23] [24] [25] [26] [28] [31] [32] [36] [39] 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Output written on tctt0900.600gf (128 characters, 17564 bytes). Transcript written on tctt0900.log. mktexpk: /tmp/texfonts/pk/ljfour/jknappen/ec/tctt0900.600pk: successfully generated. {/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 fullrefman.pdf (2277 pages, 5720221 bytes). Transcript written on fullrefman.log. This is makeindex, version 2.15 [TeX Live 2022/dev] (kpathsea + Thai support). Scanning input file fullrefman.idx..................done (14524 entries accepted, 35 rejected). Sorting entries...................................................................................................................................................................done (238768 comparisons). Generating output file fullrefman.ind.................done (14470 lines written, 50 warnings). Output written in fullrefman.ind. Transcript written in fullrefman.ilg. 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[1] [2] Underfull \hbox (badness 6995) 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 \T1/pt m/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/zi4/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/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 212--217 []\T1/ptm/m/n/10 when [][]\T1/zi4/m/n/10 capabilities[][][]("long.double") \T1/ ptm/m/n/10 is true, there are 10 such Underfull \hbox (badness 1675) in paragraph at lines 212--217 \T1/zi4/m/n/10 "longdouble." \T1/ptm/m/n/10 val-ues, spec-i-fy-ing the \T 1/zi4/m/n/10 long double \T1/ptm/m/n/10 prop-erty cor- [5] Underfull \hbox (badness 1178) in paragraph at lines 322--325 []\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 561--567 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/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 1567--1573 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2045--2045 []\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] Underfull \hbox (badness 10000) in paragraph at lines 2492--2494 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2495--2500 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2495--2500 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] Underfull \hbox (badness 2521) in paragraph at lines 5180--5182 []\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 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6371--6371 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [100] [101] [102] [103] [104] [105] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6837--6840 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 7020--7023 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [109] [110] Underfull \hbox (badness 6063) in paragraph at lines 7202--7208 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [111] Underfull \hbox (badness 1303) in paragraph at lines 7264--7271 []\T1/zi4/m/n/10 file \T1/ptm/m/n/10 can be used with \T1/zi4/m/n/10 descriptio n = "clipboard" \T1/ptm/m/n/10 in mode \T1/zi4/m/n/10 "r" \T1/ptm/m/n/10 only. This reads the Underfull \hbox (badness 2111) in paragraph at lines 7275--7280 []\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 [112] [113] Underfull \vbox (badness 3803) has occurred while \output is active [114] Underfull \vbox (badness 10000) has occurred while \output is active [115] [116] Underfull \hbox (badness 1077) in paragraph at lines 7593--7599 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7593--7599 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [117] [118] [119] [120] [121] [122] Underfull \hbox (badness 2096) in paragraph at lines 7948--7952 \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 . [123] [124] Underfull \hbox (badness 2351) in paragraph at lines 8062--8065 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-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 table[][][]\T 1/ptm/m/n/10 , [125] [126] [127] [128] [129] Underfull \hbox (badness 4479) in paragraph at lines 8388--8399 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [130] [131] [132] [133] [134] [135] [136] Underfull \hbox (badness 1629) in paragraph at lines 8839--8851 []\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 1609) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] 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 ato mic 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- [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] Underfull \hbox (badness 6396) in paragraph at lines 11228--11236 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 11228--11236 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] Underfull \hbox (badness 4569) in paragraph at lines 12377--12381 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 12377--12381 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [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] Underfull \hbox (badness 2253) in paragraph at lines 14062--14064 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [215] Underfull \hbox (badness 1565) in paragraph at lines 14138--14142 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [216] Underfull \hbox (badness 4927) in paragraph at lines 14182--14184 []\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 = [217] [218] Underfull \hbox (badness 3148) in paragraph at lines 14284--14289 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\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 . Con-sider Underfull \hbox (badness 1466) in paragraph at lines 14331--14334 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 14458--14462 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\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 14469--14472 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [221] [222] [223] [224] [225] Underfull \hbox (badness 3965) in paragraph at lines 14766--14770 []\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, [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] Underfull \hbox (badness 4429) in paragraph at lines 15546--15549 []\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 [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 15652--15654 []\T1/ptm/m/n/10 This works via \T1/zi4/m/n/10 prettyNum()\T1/ptm/m/n/10 , whic h calls Underfull \hbox (badness 1215) in paragraph at lines 15652--15654 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero) \T1/ptm/m/n/10 three times in this case, see Underfull \hbox (badness 10000) in paragraph at lines 15674--15679 []\T1/ptm/m/n/10 For num-bers, \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 calls \T 1/zi4/m/n/10 prettyNum() \T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 1558) in paragraph at lines 15674--15679 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero)\T1/ptm/m/n/10 . (\T1/ptm/m /it/10 ``when needed''\T1/ptm/m/n/10 : when \T1/zi4/m/n/10 zero.print \T1/ptm/m /n/10 is not Underfull \hbox (badness 10000) in paragraph at lines 15686--15690 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15686--15690 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want [240] Underfull \hbox (badness 2035) in paragraph at lines 15725--15729 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [241] Underfull \vbox (badness 10000) has occurred while \output is active [242] [243] [244] [245] [246] [247] [248] [249] [250] Underfull \hbox (badness 2452) in paragraph at lines 16338--16342 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent 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 16338--16342 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds 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 [251] [252] Underfull \hbox (badness 1092) in paragraph at lines 16511--16516 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [253] [254] [255] [256] Underfull \hbox (badness 6741) in paragraph at lines 16764--16768 \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/ptm/m/n/10 , [257] [258] [259] [260] [261] [262] [263] [264] [265] [266] Underfull \vbox (badness 10000) has occurred while \output is active [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] Underfull \hbox (badness 1478) in paragraph at lines 18113--18116 []\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 [278] [279] [280] [281] Underfull \hbox (badness 10000) in paragraph at lines 18381--18383 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1442) in paragraph at lines 18980--18982 []\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 [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19311--19317 [296] [297] [298] [299] Underfull \hbox (badness 1248) in paragraph at lines 19556--19559 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\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 , [300] [301] [302] [303] Underfull \hbox (badness 4739) in paragraph at lines 19819--19821 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [304] [305] [306] [307] Underfull \hbox (badness 1603) in paragraph at lines 20046--20049 []\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 . [308] [309] [310] Underfull \hbox (badness 1596) in paragraph at lines 20273--20278 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] Underfull \hbox (badness 2469) in paragraph at lines 20878--20883 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and [321] Underfull \hbox (badness 10000) in paragraph at lines 20972--20976 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory [322] [323] [324] Underfull \hbox (badness 1014) in paragraph at lines 21142--21147 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] Underfull \hbox (badness 1264) in paragraph at lines 21991--21996 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [338] Underfull \hbox (badness 4441) in paragraph at lines 22020--22023 []\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/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] Underfull \hbox (badness 6047) in paragraph at lines 22794--22796 []\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)) == [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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 : [368] [369] [370] [371] [372] [373] [374] Underfull \hbox (badness 2790) in paragraph at lines 24375--24378 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24375--24378 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [375] [376] [377] [378] [379] Underfull \hbox (badness 1194) in paragraph at lines 24664--24667 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [380] [381] [382] Underfull \hbox (badness 2368) in paragraph at lines 24871--24877 []\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-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24871--24877 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [383] [384] [385] [386] [387] [388] Underfull \hbox (badness 10000) in paragraph at lines 25256--25259 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] Underfull \hbox (badness 10000) in paragraph at lines 25876--25878 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1038) in paragraph at lines 26737--26745 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 26746--26749 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are [411] Underfull \hbox (badness 6220) in paragraph at lines 26770--26772 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [412] Underfull \hbox (badness 2142) in paragraph at lines 26911--26915 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [413] Underfull \hbox (badness 1968) in paragraph at lines 26968--26973 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 27262--27268 []\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 27262--27268 \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 27262--27268 \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 27275--27278 []\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/ptm/m/n/10 and [417] Underfull \hbox (badness 2689) in paragraph at lines 27301--27303 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 27336--27341 []\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 27342--27353 \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 27342--27353 \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 use and Underfull \hbox (badness 7203) in paragraph at lines 27354--27357 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and [418] [419] Underfull \vbox (badness 3803) has occurred while \output is active [420] [421] [422] [423] [424] [425] Underfull \hbox (badness 10000) in paragraph at lines 27901--27904 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [426] Underfull \hbox (badness 7925) in paragraph at lines 27982--27986 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \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 1622) in paragraph at lines 27982--27986 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] [427] Underfull \hbox (badness 6125) in paragraph at lines 27987--27996 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] Underfull \hbox (badness 2726) in paragraph at lines 28935--28938 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [443] [444] [445] [446] [447] [448] [449] [450] [451] [452] [453] [454] Underfull \hbox (badness 1603) in paragraph at lines 29685--29688 []\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 [][]$\T1/zi4/m/n/10 https : / / www . [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] Underfull \hbox (badness 1533) in paragraph at lines 30713--30716 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [470] [471] [472] Underfull \hbox (badness 1163) in paragraph at lines 30876--30887 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [473] [474] [475] [476] [477] [478] [479] Underfull \vbox (badness 10000) has occurred while \output is active [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] Underfull \hbox (badness 10000) in paragraph at lines 32539--32543 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32539--32543 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32560--32562 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32563--32567 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 pcre2pattern \T1/ptm/m/n/10 or \T1/zi4/m/n/ 10 pcrepattern man \T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m/n/10 ht tps : / / www . pcre . org / [499] [500] Underfull \vbox (badness 10000) has occurred while \output is active [501] [502] [503] [504] [505] [506] [507] [508] Underfull \hbox (badness 1655) in paragraph at lines 33157--33159 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] Underfull \hbox (badness 2261) in paragraph at lines 34349--34354 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [527] Underfull \hbox (badness 10000) in paragraph at lines 34376--34382 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 34376--34382 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 10000) in paragraph at lines 36987--36989 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [568] Underfull \vbox (badness 10000) has occurred while \output is active [569] [570] [571] [572] [573] [574] [575] [576] Underfull \hbox (badness 1072) in paragraph at lines 37584--37588 []\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 37589--37593 []\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/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', [577] Underfull \hbox (badness 10000) in paragraph at lines 37619--37625 []\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 37619--37625 \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 37619--37625 \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 37634--37641 []\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 37634--37641 \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 37634--37641 \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 37634--37641 \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 [578] [579] [580] Underfull \hbox (badness 2644) in paragraph at lines 37866--37870 []\T1/ptm/m/n/10 alternative to \T1/zi4/m/n/10 exprs \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 ...\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [581] [582] [583] Underfull \hbox (badness 1142) in paragraph at lines 38018--38024 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] Underfull \hbox (badness 1565) in paragraph at lines 39297--39299 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] Underfull \hbox (badness 1137) in paragraph at lines 39887--39893 []\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 Underfull \hbox (badness 4967) in paragraph at lines 39906--39911 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [614] [615] Underfull \hbox (badness 1616) in paragraph at lines 40026--40031 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 1472) in paragraph at lines 40568--40571 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [625] [626] [627] [628] [629] [630] [631] [632] [633] [634] [635] [636] [637] Underfull \vbox (badness 3803) has occurred while \output is active [638] Underfull \hbox (badness 10000) in paragraph at lines 41487--41491 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41738--41741 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [643] [644] [645] Underfull \hbox (badness 10000) in paragraph at lines 41922--41926 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [646] [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 10000) in paragraph at lines 42547--42550 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [655] [656] [657] [658] [659] [660] Underfull \vbox (badness 10000) has occurred while \output is active [661] [662] [663] [664] [665] [666] [667] [668] Underfull \hbox (badness 1990) in paragraph at lines 43469--43477 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43469--43477 \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 [669] [670] [671] [672] [673] [674] [675] [676] Underfull \hbox (badness 1917) in paragraph at lines 43975--43982 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 2452) in paragraph at lines 44428--44434 [][][]\T1/zi4/m/n/10 file[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.access[ ][][]\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 , [684] [685] [686] [687] [688] [689] Underfull \hbox (badness 3668) in paragraph at lines 44802--44804 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [690] [691] Underfull \hbox (badness 2401) in paragraph at lines 44932--44936 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [692] [693] [694] Underfull \hbox (badness 2111) in paragraph at lines 45139--45144 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 45160--45165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [695] [696] [697] [698] Underfull \hbox (badness 4001) in paragraph at lines 45385--45387 []\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 . [699] [700] [701] [702] [703] Underfull \hbox (badness 5417) in paragraph at lines 45750--45754 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [704] Underfull \hbox (badness 10000) in paragraph at lines 45811--45815 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [705] [706]) (./compiler-pkg.tex Chapter 2. [707] [708] [709] [710]) (./datasets-pkg.tex Chapter 3. [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] 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. [728] [729] [730] [731] [732] [733] [734] [735] [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]) (./grDevices-pkg.tex [794] Chapter 4. [795] [796] [797] [798] [799] Underfull \hbox (badness 3158) 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/ptm/m/n/1 0 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 [800] [801] [802] [803] [804] [805] [806] [807] [808] [809] 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) and \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i -fied as [810] [811] [812] [813] 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 [814] [815] 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 / [816] [817] Underfull \hbox (badness 1852) in paragraph at lines 1405--1408 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [818] [819] [820] 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 \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [821] [822] [823] [824] [825] [826] Underfull \hbox (badness 1325) in paragraph at lines 2017--2027 \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 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [827] [828] Underfull \hbox (badness 10000) in paragraph at lines 2129--2131 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [829] [830] [831] Underfull \hbox (badness 6758) in paragraph at lines 2308--2311 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] Underfull \hbox (badness 10000) in paragraph at lines 2919--2920 [842] [843] [844] [845] [846] [847] [848] [849] [850] Underfull \hbox (badness 10000) in paragraph at lines 3493--3498 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [851] [852] [853] Underfull \vbox (badness 3803) has occurred while \output is active [854] [855] [856] [857] Underfull \vbox (badness 3803) has occurred while \output is active [858] Underfull \hbox (badness 10000) in paragraph at lines 3992--3995 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [859] [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / conte nt / dam / acom / en / devnet / acrobat / pdfs / pdf _ Underfull \hbox (badness 1881) in paragraph at lines 4732--4737 \T1/zi4/m/n/10 reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in dec-i-mal, oc -tal and hex at [][]$\T1/zi4/m/n/10 https : / / www . stat . auckland . ac . [870] [871] [872] Underfull \hbox (badness 1584) in paragraph at lines 4888--4890 []\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 4892--4899 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [873] [874] [875] [876] Underfull \hbox (badness 1377) in paragraph at lines 5198--5203 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [877] Underfull \hbox (badness 1418) in paragraph at lines 5274--5281 \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 "Helvetica-Narrow"\T1/ptm /m/n/10 , [878] Underfull \hbox (badness 1755) in paragraph at lines 5292--5294 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [879] Underfull \hbox (badness 1377) in paragraph at lines 5403--5408 []\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 [880] Underfull \hbox (badness 7344) in paragraph at lines 5472--5474 []\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 [881] Underfull \vbox (badness 3803) has occurred while \output is active [882] Underfull \hbox (badness 2035) in paragraph at lines 5610--5619 []\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 5610--5619 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "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-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5610--5619 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [883] [884] Underfull \hbox (badness 10000) in paragraph at lines 5678--5680 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [885] [886] Underfull \hbox (badness 1546) in paragraph at lines 5820--5828 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/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 , [887] [888] [889] [890] [891] [892] [893] [894] Underfull \hbox (badness 10000) in paragraph at lines 6358--6361 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [895] [896] Underfull \vbox (badness 3803) has occurred while \output is active [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1189) in paragraph at lines 7184--7186 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [909] Underfull \hbox (badness 10000) in paragraph at lines 7289--7291 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [910] [911] [912] [913] [914] Underfull \hbox (badness 3780) in paragraph at lines 7603--7609 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [915] [916] [917] Underfull \hbox (badness 2680) in paragraph at lines 7805--7807 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [918] [919] [920]) (./graphics-pkg.tex Chapter 5. [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] Overfull \hbox (12.71341pt too wide) in paragraph at lines 981--981 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 4634) in paragraph at lines 1355--1358 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] Underfull \hbox (badness 1728) in paragraph at lines 2333--2335 []\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 [960] Underfull \hbox (badness 1009) in paragraph at lines 2426--2433 \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 [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] Underfull \vbox (badness 10000) has occurred while \output is active [983] Underfull \vbox (badness 10000) has occurred while \output is active [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] Underfull \hbox (badness 3229) in paragraph at lines 4602--4607 []\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 [996] [997] [998] [999] [1000] Underfull \hbox (badness 10000) in paragraph at lines 5032--5038 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 5032--5038 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [1001] [1002] Underfull \hbox (badness 10000) in paragraph at lines 5163--5166 [1003 ] Underfull \hbox (badness 10000) in paragraph at lines 5224--5226 Underfull \vbox (badness 10000) has occurred while \output is active [1004] [1005 ] [1006] Underfull \hbox (badness 10000) in paragraph at lines 5414--5416 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [1007] Underfull \vbox (badness 3803) has occurred while \output is active [1008] [1009] [1010] [1011] [1012] [1013] [1014]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5896 \aliasA{plot}{plot.default}{plot} [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6801--6802 [][] [1029 ] [1030] Underfull \vbox (badness 3803) has occurred while \output is active [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] Underfull \hbox (badness 2012) in paragraph at lines 7623--7626 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] Underfull \hbox (badness 10000) in paragraph at lines 8889--8891 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8891--8893 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1064]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8971 \HeaderA{units}{Graphical Units}{units} [1065] [1066] [1067] [1068]) (./grid-pkg.tex Chapter 6. [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] Underfull \hbox (badness 2680) in paragraph at lines 486--489 []\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-cu-la-tio n of [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 4279) in paragraph at lines 1112--1121 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/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 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [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] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] Underfull \hbox (badness 1067) in paragraph at lines 4537--4540 []\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 [1147] [1148] [1149] [1150] Underfull \hbox (badness 7256) in paragraph at lines 4782--4784 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] Underfull \hbox (badness 1824) in paragraph at lines 6753--6756 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1185] [1186] [1187] [1188]) (./methods-pkg.tex Chapter 7. [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] Underfull \vbox (badness 10000) has occurred while \output is active [1197] Underfull \vbox (badness 10000) has occurred while \output is active [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] 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-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1216] 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 c an 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/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1217] [1218] [1219] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\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 = [1220] [1221] [1222] [1223] [1224] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1225] [1226] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1227] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1235] [1236] [1237] [1238] [1239] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1240] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1241] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\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 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] Underfull \vbox (badness 10000) has occurred while \output is active [1263] [1264] [1265] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\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 [1266] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1267] [1268] [1269] [1270] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\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 [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1279] [1280] [1281] [1282] Underfull \vbox (badness 10000) has occurred while \output is active [1283] [1284] [1285] [1286]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1287] [1288] [1289]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1290] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\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 [1291] [1292] [1293] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] Underfull \vbox (badness 10000) has occurred while \output is active [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1329] [1330] [1331] [1332] [1333] [1334] [1335] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\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., [1336] [1337] [1338] [1339]) (./parallel-pkg.tex [1340] 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/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1341] [1342] [1343] [1344] [1345] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] Underfull \hbox (badness 3386) in paragraph at lines 1401--1404 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1363] [1364] [1365]) (./splines-pkg.tex [1366] 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 [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382]) (./stats-pkg.tex Chapter 10. [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 1412) in paragraph at lines 882--884 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2503) in paragraph at lines 1364--1367 []\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 , [1405] [1406] [1407] Underfull \hbox (badness 10000) in paragraph at lines 1544--1548 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 3514--3517 []\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 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1127) in paragraph at lines 4430--4433 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1454] [1455] [1456] [1457] [1458] Underfull \hbox (badness 3989) in paragraph at lines 4770--4777 []\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 = [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Underfull \hbox (badness 2556) in paragraph at lines 5406--5409 []\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 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5423--5425 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 2503) in paragraph at lines 5820--5824 []\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 , [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 7081) in paragraph at lines 6614--6617 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can 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 6618--6620 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1489] [1490] [1491] [1492] [1493] Underfull \vbox (badness 3803) has occurred while \output is active [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] Underfull \hbox (badness 10000) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \vbox (badness 10000) has occurred while \output is active [1524] [1525] [1526] [1527] [1528] Underfull \hbox (badness 2626) in paragraph at lines 9144--9147 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1529] [1530] Underfull \hbox (badness 2503) in paragraph at lines 9251--9255 []\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 , [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 4518) in paragraph at lines 10587--10592 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1551] [1552] [1553] [1554] [1555] Underfull \hbox (badness 2142) in paragraph at lines 10948--10951 []\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 ^^@ [1556] Underfull \hbox (badness 1253) in paragraph at lines 10967--10970 []\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, [1557] Underfull \hbox (badness 1708) in paragraph at lines 11029--11033 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 1694) in paragraph at lines 11425--11428 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11909 \aliasA{hat}{influence.measures}{hat} [1572] [1573] Underfull \hbox (badness 1484) in paragraph at lines 12051--12053 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] Underfull \hbox (badness 10000) in paragraph at lines 12650--12652 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1584] [1585] [1586] [1587] [1588] [1589] Underfull \hbox (badness 2894) in paragraph at lines 12986--12990 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4518) in paragraph at lines 13737--13742 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 4518) in paragraph at lines 14390--14395 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1611] [1612] [1613] Underfull \hbox (badness 8151) in paragraph at lines 14528--14532 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14535--14537 []\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 [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] Underfull \hbox (badness 2503) in paragraph at lines 15611--15615 []\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 , [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Underfull \hbox (badness 10000) in paragraph at lines 16124--16130 []\T1/zi4/m/n/10 model.extract(m,"offset") \T1/ptm/m/n/10 and \T1/zi4/m/n/10 mo del.extract(m,"response") \T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16124--16130 \T1/zi4/m/n/10 model.offset(m) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response (m) \T1/ptm/m/n/10 re-spec-tively. \T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 s ums any terms [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] Underfull \hbox (badness 1158) in paragraph at lines 17767--17770 []\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- [1666] [1667] Underfull \vbox (badness 3803) has occurred while \output is active [1668] Underfull \vbox (badness 10000) has occurred while \output is active [1669] Underfull \vbox (badness 10000) has occurred while \output is active [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1377) in paragraph at lines 18790--18795 []\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 18795--18798 []\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 18808--18812 []\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 18808--18812 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18816--18820 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1684] [1685] [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19041--19041 []\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 19044--19044 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1688] [1689] [1690] [1691] [1692] [1693] [1694] Underfull \hbox (badness 1337) in paragraph at lines 19503--19506 []\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 [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 3049) in paragraph at lines 20001--20005 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1704] [1705] [1706] [1707] Underfull \hbox (badness 1194) in paragraph at lines 20264--20267 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 2503) in paragraph at lines 20643--20646 []\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 , Underfull \hbox (badness 3919) in paragraph at lines 20670--20672 []\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 [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 10000) in paragraph at lines 21748--21754 []\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/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] [1755] Underfull \hbox (badness 1337) in paragraph at lines 23105--23111 []\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 [1756] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \hbox (badness 3780) in paragraph at lines 23530--23533 []\T1/ptm/m/n/10 used only when \T1/zi4/m/n/10 names \T1/ptm/m/n/10 is true: th e pre-ci-sion to use when for-mat- Underfull \hbox (badness 1152) in paragraph at lines 23530--23533 \T1/ptm/m/n/10 ting the per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-s ions up to 4.0.x, this had been set to [1763] Underfull \hbox (badness 10000) in paragraph at lines 23671--23672 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 10000) in paragraph at lines 23955--23958 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23955--23958 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] Underfull \hbox (badness 1824) in paragraph at lines 24632--24638 []\T1/ptm/m/n/10 Here, all the NAs in \T1/zi4/m/n/10 x \T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24632--24638 \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 [1780] Underfull \hbox (badness 10000) in paragraph at lines 24653--24656 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = Underfull \hbox (badness 3690) in paragraph at lines 24722--24726 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1781] Underfull \vbox (badness 3803) has occurred while \output is active [1782] [1783] [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 2165) in paragraph at lines 25234--25239 []\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/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1790] [1791] [1792] [1793] Underfull \hbox (badness 1867) in paragraph at lines 25439--25441 []\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 25454--25458 []\T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = use.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] Underfull \vbox (badness 10000) has occurred while \output is active [1818] Underfull \hbox (badness 3514) in paragraph at lines 27017--27022 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1819] [1820] [1821] [1822] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27251--27251 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1823] Underfull \hbox (badness 3514) in paragraph at lines 27287--27293 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1824] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27344--27344 []\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 27346--27346 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1825] [1826] [1827] Underfull \hbox (badness 3514) in paragraph at lines 27520--27525 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1828] [1829] Underfull \hbox (badness 3514) in paragraph at lines 27607--27612 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1830] Underfull \hbox (badness 3514) in paragraph at lines 27672--27677 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1831] [1832] Underfull \hbox (badness 3514) in paragraph at lines 27766--27771 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1833] Underfull \hbox (badness 6691) in paragraph at lines 27858--27863 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 4024) in paragraph at lines 28349--28352 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1842] [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] Underfull \hbox (badness 5431) in paragraph at lines 28955--28957 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1852] [1853] [1854] [1855] Underfull \hbox (badness 5431) in paragraph at lines 29165--29168 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 1337) in paragraph at lines 29480--29484 []\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 [1861] [1862] [1863] [1864] [1865] Underfull \hbox (badness 1616) in paragraph at lines 29792--29795 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] [1878] [1879] [1880] [1881] [1882] [1883] [1884] Underfull \hbox (badness 3557) in paragraph at lines 30927--30931 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1885] [1886] [1887] Underfull \vbox (badness 10000) has occurred while \output is active [1888] [1889] [1890] Underfull \hbox (badness 1337) in paragraph at lines 31291--31295 []\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 [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 1337) in paragraph at lines 31820--31824 []\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 Underfull \hbox (badness 10000) in paragraph at lines 31834--31836 []\T1/ptm/m/n/10 (when \T1/zi4/m/n/10 conf.int \T1/ptm/m/n/10 is true:) a pos-i -tive nu-meric tol-er-ance, used in [1900] [1901] [1902] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32027--32027 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1903] [1904] [1905] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32188--32188 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1906] [1907] [1908] [1909] [1910]) (./stats4-pkg.tex Chapter 11. [1911] [1912] [1913] Underfull \vbox (badness 10000) has occurred while \output is active [1914] Underfull \vbox (badness 10000) has occurred while \output is active [1915] [1916] [1917] [1918]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} [1919] [1920] [1921]) (./tcltk-pkg.tex [1922] Chapter 12. [1923] [1924] [1925] [1926] [1927] [1928] [1929] Underfull \vbox (badness 10000) has occurred while \output is active [1930] Underfull \vbox (badness 10000) has occurred while \output is active [1931] 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-ing any Tk or Tcl com-mand by sim-ply run-ning [1932] [1933] [1934] [1935] [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944]) (./tools-pkg.tex Chapter 13. [1945] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1946] 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 b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1947] [1948] 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 bibe ntry[][][] \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 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 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/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1949] [1950] 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-gine to use. Over-rides any [1951] 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 [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] [1961] [1962] [1963] 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 [1964] 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/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1965] [1966] [1967] [1968] [1969] 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, with its func-tion-al-ity in-te-grated into that of [1970] [1971] Underfull \hbox (badness 7981) in paragraph at lines 1707--1715 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of 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 [1972] [1973] [1974] [1975]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} [1976] [1977] [1978] [1979] [1980] 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}",[] [1981] [1982] [1983] Underfull \hbox (badness 7981) in paragraph at lines 2391--2399 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1984] [1985] [1986] [1987] [1988] [1989] [1990] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 2885. 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[1991] [1992] [1993] [1994] [1995] Underfull \hbox (badness 1424) in paragraph at lines 3177--3179 []\T1/zi4/m/it/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1996] [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004] [2005] [2006] Underfull \hbox (badness 10000) in paragraph at lines 3878--3880 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 4017--4020 []\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 [2009] [2010] Underfull \hbox (badness 1137) in paragraph at lines 4119--4121 []\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 [2011] [2012] [2013] [2014] [2015] Underfull \hbox (badness 1796) in paragraph at lines 4427--4432 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/it/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/it/10 type == [2016] Underfull \hbox (badness 1838) in paragraph at lines 4501--4507 []\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 4501--4507 \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 [2017] [2018] [2019] [2020] Underfull \hbox (badness 2197) in paragraph at lines 4776--4786 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/it/10 available.packages[][][]\T1/ptm/m/n/10 : [2021] Underfull \hbox (badness 1571) in paragraph at lines 4842--4846 []\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 [2022] [2023] [2024]) (./utils-pkg.tex Chapter 14. [2025] 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 `\T 1/zi4/m/it/10 insertions\T1/ptm/m/n/10 ', [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/zi4/m/it/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [2031] [2032] [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 720--726 []\T1/ptm/m/n/10 Functions \T1/zi4/m/it/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/it/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 720--726 \T1/zi4/m/it/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/it/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [2036] [2037] Underfull \hbox (badness 5847) in paragraph at lines 857--863 []\T1/ptm/m/n/10 Argument \T1/zi4/m/it/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 857--863 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/it/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [2038] Underfull \hbox (badness 3861) in paragraph at lines 925--930 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/it/10 "O S_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 , [2039] [2040] [2041] Underfull \hbox (badness 3323) in paragraph at lines 1108--1116 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/it/1 0 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 1108--1116 \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 1108--1116 \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 3735) in paragraph at lines 1108--1116 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/it/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1108--1116 \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 1120--1122 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] Underfull \hbox (badness 1371) in paragraph at lines 1625--1627 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2050] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1695. [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] Underfull \hbox (badness 2057) in paragraph at lines 2346--2348 []\T1/ptm/m/n/10 None for \T1/zi4/m/it/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2061] [2062] [2063] [2064] [2065] [2066]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2697 ... the Clipboard in MS Windows}{clipboard} [2067] [2068] [2069] Underfull \hbox (badness 1748) in paragraph at lines 2864--2867 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/it/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/it/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/it/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 5388) in paragraph at lines 3274--3278 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/it/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/it/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3279--3282 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/it/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[] [][](...,header = TRUE,sep = [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] Underfull \hbox (badness 1430) in paragraph at lines 4063--4071 []\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 [2088] Underfull \hbox (badness 1231) in paragraph at lines 4140--4152 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2089] [2090] Underfull \hbox (badness 10000) in paragraph at lines 4297--4299 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/it/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4995 ...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.4995 ...mat Unordered and Ordered Lists}{format} [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 1622) in paragraph at lines 5514--5518 []\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 [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \vbox (badness 3803) has occurred while \output is active [2118] [2119] [2120] [2121] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6232. Underfull \hbox (badness 1371) in paragraph at lines 6236--6238 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2122] Underfull \hbox (badness 1502) in paragraph at lines 6325--6330 []\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 6325--6330 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2123] [2124] [2125] Underfull \hbox (badness 10000) in paragraph at lines 6498--6507 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2126] Underfull \hbox (badness 2150) in paragraph at lines 6562--6565 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2127] [2128] Underfull \hbox (badness 3118) in paragraph at lines 6701--6703 []\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 [2129] [2130] [2131] Underfull \hbox (badness 1325) in paragraph at lines 6880--6884 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/it/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6892--6898 \T1/ptm/m/n/10 used if \T1/zi4/m/it/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2132] Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 \T1/ptm/m/n/10 passed to \T1/zi4/m/it/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., Underfull \hbox (badness 1424) in paragraph at lines 6972--6975 []\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 [2133] Underfull \hbox (badness 3219) in paragraph at lines 7043--7050 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/it/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7043--7050 \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 7043--7050 \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 7043--7050 [][]\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 silently Underfull \hbox (badness 2932) in paragraph at lines 7051--7054 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/it/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2134] Underfull \hbox (badness 1546) in paragraph at lines 7177--7180 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing \T1/zi4/m/it/10 available.pa ckages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 ,] \T1/ptm/m /n/10 will [2135] Underfull \hbox (badness 10000) in paragraph at lines 7210--7215 [][][]\T1/zi4/m/it/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/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 , [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] Underfull \hbox (badness 10000) in paragraph at lines 7997--7999 []\T1/ptm/m/n/10 typically the re-sult of \T1/zi4/m/it/10 methods(..)\T1/ptm/m/ n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] [2159] [2160] Underfull \hbox (badness 10000) in paragraph at lines 8735--8737 []\T1/ptm/m/n/10 for \T1/zi4/m/it/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/it/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8757--8762 []\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, [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] Underfull \hbox (badness 1248) in paragraph at lines 9283--9287 []\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 [2170] Underfull \hbox (badness 1789) in paragraph at lines 9363--9365 []\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 [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] Underfull \hbox (badness 1097) in paragraph at lines 10200--10203 []\T1/ptm/m/n/10 The name \T1/zi4/m/it/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2183] [2184] Underfull \hbox (badness 3000) in paragraph at lines 10336--10341 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/it/10 read.t able[][][]\T1/ptm/m/n/10 ; [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] Underfull \hbox (badness 2134) in paragraph at lines 10925--10930 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \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 ; [2194] Underfull \hbox (badness 10000) in paragraph at lines 10981--10986 []\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 10981--10986 \T1/zi4/m/it/10 HKEY_LOCAL_MACHINE\T1/ptm/m/n/10 , \T1/zi4/m/it/10 HKEY_CLASSES _ROOT\T1/ptm/m/n/10 . \T1/zi4/m/it/10 HKEY_CURRENT_USER\T1/ptm/m/n/10 , [2195] [2196] [2197] [2198] [2199] [2200] [2201] [2202] [2203] Underfull \hbox (badness 2469) in paragraph at lines 11475--11479 []\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 11475--11479 [][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / w / index . php ? title = Roman _ numerals & oldid = 78252134$[][]\T1/ptm/m/n/10 . Ac- [2204] [2205] [2206] [2207] [2208] [2209] Underfull \hbox (badness 4060) in paragraph at lines 11891--11894 []\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 var i-able Overfull \hbox (18.77168pt too wide) in paragraph at lines 11914--11914 []\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 '[] [2210] [2211] [2212] [2213] Underfull \hbox (badness 2150) in paragraph at lines 12162--12164 [][][]$\T1/zi4/m/it/10 https : / / en . wikipedia . org / wiki / Ctags$[][]\T1/ ptm/m/n/10 , [][]$\T1/zi4/m/it/10 https : / / www . gnu . org / software / emac s / manual / [2214] [2215] [2216] [2217] Underfull \hbox (badness 10000) in paragraph at lines 12381--12385 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/it/10 stylepath \T1/ptm/m/n/10 is n ow taken from the en-vi-ron-ment vari-able Underfull \hbox (badness 10000) in paragraph at lines 12412--12418 []\T1/ptm/m/n/10 If you wish to over-ride this de-fault be-hav-ior en-tirely, y ou can add a [2218] [2219] Underfull \hbox (badness 1009) in paragraph at lines 12606--12618 []\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 [2220] Underfull \hbox (badness 4779) in paragraph at lines 12646--12648 []\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-dows a nd Underfull \hbox (badness 1077) in paragraph at lines 12676--12683 \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 [2221] [2222] [2223] [2224] [2225] [2226] [2227] Underfull \hbox (badness 3780) in paragraph at lines 13084--13088 []\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 13100--13103 []\T1/ptm/m/n/10 Repository `\T1/zi4/m/it/10 CRAN\T1/ptm/m/n/10 ' is treated sp e-cially: the value is taken from the cur-rent set-ting of [2228] [2229] [2230] [2231] Underfull \hbox (badness 2302) in paragraph at lines 13305--13307 []\T1/ptm/m/n/10 Convert file paths to the short form. 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[1] [2] Underfull \hbox (badness 6995) 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 \T1/pt m/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/zi4/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/zi 4/m/n/10 -(double.digits + 3)\T1/ptm/m/n/10 , [3] [4] Underfull \hbox (badness 10000) in paragraph at lines 212--217 []\T1/ptm/m/n/10 when [][]\T1/zi4/m/n/10 capabilities[][][]("long.double") \T1/ ptm/m/n/10 is true, there are 10 such Underfull \hbox (badness 1675) in paragraph at lines 212--217 \T1/zi4/m/n/10 "longdouble." \T1/ptm/m/n/10 val-ues, spec-i-fy-ing the \T 1/zi4/m/n/10 long double \T1/ptm/m/n/10 prop-erty cor- [5] Underfull \hbox (badness 1178) in paragraph at lines 322--325 []\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 561--567 []\T1/ptm/m/n/10 a nu-meric vec-tor or list with names par-tially match-ing `\T 1/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 1567--1573 [26] [27] [28] [29] [30] [31] [32] Overfull \hbox (26.27782pt too wide) in paragraph at lines 2045--2045 []\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] Underfull \hbox (badness 10000) in paragraph at lines 2492--2494 []\T1/ptm/m/n/10 The val-ues of the splits can also be ob-tained (less ef-fi-ci ently) by Underfull \hbox (badness 10000) in paragraph at lines 2495--2500 [][][]\T1/zi4/m/n/10 apply[][][] \T1/ptm/m/n/10 al-ways sim-pli-fies com-mon le ngth re-sults, so at-tempt-ing to split via Underfull \hbox (badness 1102) in paragraph at lines 2495--2500 \T1/zi4/m/n/10 apply(x,MARGIN,identity) \T1/ptm/m/n/10 does not work (as it sim -ply gives \T1/zi4/m/n/10 x\T1/ptm/m/n/10 ). By chain-ing \T1/zi4/m/n/10 asplit [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] [55] [56] [57] [58] [59] [60] Underfull \hbox (badness 10000) in paragraph at lines 3890--3892 []\T1/ptm/m/n/10 The num-ber of lines printed for the de-parsed call can be lim -ited by set-ting [61] [62] [63] [64] [65] [66] [67] [68] [69] [70] [71] [72] [73] [74] [75] [76] [77] [78] [79] [80] Underfull \hbox (badness 2521) in paragraph at lines 5180--5182 []\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 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] [95] [96] [97] [98] [99] Overfull \hbox (5.27168pt too wide) in paragraph at lines 6371--6371 []\T1/zi4/m/n/9 stopifnot(is.na(NpNA), is.na(NA_complex_), is.na(Re(NA_complex _)), is.na(Im(NA_complex_)))[] [100] [101] [102] [103] [104] [105] Overfull \hbox (46.35893pt too wide) in paragraph at lines 6837--6840 []\T1/ptm/m/n/10 character string, par-tially matched to \T1/zi4/m/n/10 c("defa ult","internal","wininet","libcurl")\T1/ptm/m/n/10 : [106] [107] [108] Underfull \hbox (badness 10000) in paragraph at lines 7020--7023 []\T1/ptm/m/n/10 A note on `\T1/zi4/m/n/10 file://\T1/ptm/m/n/10 ' URLs. The mo st gen-eral form (from RFC1738) is [109] [110] Underfull \hbox (badness 6063) in paragraph at lines 7202--7208 []\T1/ptm/m/n/10 As from \T1/phv/m/n/10 R \T1/ptm/m/n/10 3.0.0 the en-cod-ing \ T1/zi4/m/n/10 "UTF-8-BOM" \T1/ptm/m/n/10 is ac-cepted for read-ing and will re- Underfull \hbox (badness 2343) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 move a Byte Or-der Mark if present (which it of-ten is for files and web-pages gen-er- Underfull \hbox (badness 1708) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 ated by Mi-crosoft ap-pli-ca-tions). If a BOM is re-quired (it i s not rec-om-mended) when Underfull \hbox (badness 1831) in paragraph at lines 7202--7208 \T1/ptm/m/n/10 writ-ing it should be writ-ten ex-plic-itly, e.g. by \T1/zi4/m/n /10 writeChar("\ufeff",con,eos = NULL) \T1/ptm/m/n/10 or [111] Underfull \hbox (badness 1303) in paragraph at lines 7264--7271 []\T1/zi4/m/n/10 file \T1/ptm/m/n/10 can be used with \T1/zi4/m/n/10 descriptio n = "clipboard" \T1/ptm/m/n/10 in mode \T1/zi4/m/n/10 "r" \T1/ptm/m/n/10 only. This reads the Underfull \hbox (badness 2111) in paragraph at lines 7275--7280 []\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 [112] [113] Underfull \vbox (badness 3803) has occurred while \output is active [114] Underfull \vbox (badness 10000) has occurred while \output is active [115] [116] Underfull \hbox (badness 1077) in paragraph at lines 7593--7599 []\T1/ptm/m/n/10 A length-one log-i-cal vec-tor that is not \T1/zi4/m/n/10 NA\T 1/ptm/m/n/10 . Con-di-tions of length greater Underfull \hbox (badness 1231) in paragraph at lines 7593--7599 \T1/ptm/m/n/10 than one are cur-rently ac-cepted with a warn-ing, but only the first el-e- [117] [118] [119] [120] [121] [122] Underfull \hbox (badness 2096) in paragraph at lines 7948--7952 \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 . [123] [124] Underfull \hbox (badness 2351) in paragraph at lines 8062--8065 [][][]\T1/zi4/m/n/10 split[][][] \T1/ptm/m/n/10 for split-ting a vari-able ac-c ord-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 table[][][]\T 1/ptm/m/n/10 , [125] [126] [127] [128] [129] Underfull \hbox (badness 4479) in paragraph at lines 8388--8399 [][][]\T1/zi4/m/n/10 I[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 plot.data.frame [][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 print.data.frame[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 row.names[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 names[] [][] \T1/ptm/m/n/10 (for the col-umn names), [130] [131] [132] [133] [134] [135] [136] Underfull \hbox (badness 1629) in paragraph at lines 8839--8851 []\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 1609) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 there is a prob-lem in the POSIX/C99 stan-dard with \T1/zi4/m/n/ 10 "1969-12-31 23:59:59 UTC"\T1/ptm/m/n/10 , which Underfull \hbox (badness 2426) in paragraph at lines 8839--8851 \T1/ptm/m/n/10 is \T1/zi4/m/n/10 -1 \T1/ptm/m/n/10 in cal-en-dar time and that value is on those OSes also used as an er-ror code. [137] [138] [139] [140] [141] [142] [143] [144] [145] [146] [147] 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 ato mic 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- [148] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] [160] [161] [162] [163] [164] [165] [166] [167] [168] [169] [170] [171] [172] Underfull \hbox (badness 6396) in paragraph at lines 11228--11236 []\T1/ptm/m/n/10 For the de-fault meth-ods, and when-ever there are equiv-a-len t method def-i-ni-tions for Underfull \hbox (badness 1946) in paragraph at lines 11228--11236 \T1/zi4/m/n/10 duplicated \T1/ptm/m/n/10 and \T1/zi4/m/n/10 anyDuplicated\T1/pt m/m/n/10 , \T1/zi4/m/n/10 anyDuplicated(x,...) \T1/ptm/m/n/10 is a ``gen-er-al- ized'' short-cut for [173] [174] [175] [176] [177] [178] [179] [180] [181] [182] [183] [184] [185] [186] [187] [188] Underfull \hbox (badness 4569) in paragraph at lines 12377--12381 []\T1/ptm/m/n/10 When eval-u-at-ing ex-pres-sions in a data frame that has been passed as an ar-gu-ment Underfull \hbox (badness 2401) in paragraph at lines 12377--12381 \T1/ptm/m/n/10 to a func-tion, the rel-e-vant en-clo-sure is of-ten the caller' s en-vi-ron-ment, i.e., one needs [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] Underfull \hbox (badness 2253) in paragraph at lines 14062--14064 []\T1/ptm/m/n/10 character vec-tors con-tain-ing file paths. Tilde-expansion is done: see [215] Underfull \hbox (badness 1565) in paragraph at lines 14138--14142 [][][]\T1/zi4/m/n/10 Sys.readlink[][][] \T1/ptm/m/n/10 to find out about sym-bo lic links, [][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 fi le.access[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[][][]\T1/ptm/m/n/ 10 , and [216] Underfull \hbox (badness 4927) in paragraph at lines 14182--14184 []\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 = [217] [218] Underfull \hbox (badness 3148) in paragraph at lines 14284--14289 [][][]\T1/zi4/m/n/10 files[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 list.files[ ][][]\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 . Con-sider Underfull \hbox (badness 1466) in paragraph at lines 14331--14334 []\T1/ptm/m/n/10 character vec-tors, con-tain-ing file names or paths. For \T1/ zi4/m/n/10 file.copy \T1/ptm/m/n/10 and [219] [220] Underfull \hbox (badness 10000) in paragraph at lines 14458--14462 [][][]\T1/zi4/m/n/10 file.info[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.ac cess[][][]\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 14469--14472 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Hard _ link$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wik i / [221] [222] [223] [224] [225] Underfull \hbox (badness 3965) in paragraph at lines 14766--14770 []\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, [226] [227] [228] [229] [230] [231] [232] [233] [234] [235] [236] [237] Underfull \hbox (badness 4429) in paragraph at lines 15546--15549 []\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 [238] [239] Underfull \hbox (badness 10000) in paragraph at lines 15652--15654 []\T1/ptm/m/n/10 This works via \T1/zi4/m/n/10 prettyNum()\T1/ptm/m/n/10 , whic h calls Underfull \hbox (badness 1215) in paragraph at lines 15652--15654 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero) \T1/ptm/m/n/10 three times in this case, see Underfull \hbox (badness 10000) in paragraph at lines 15674--15679 []\T1/ptm/m/n/10 For num-bers, \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 calls \T 1/zi4/m/n/10 prettyNum() \T1/ptm/m/n/10 when needed which it-self calls Underfull \hbox (badness 1558) in paragraph at lines 15674--15679 \T1/zi4/m/n/10 .format.zeros(*,replace=replace.zero)\T1/ptm/m/n/10 . (\T1/ptm/m /it/10 ``when needed''\T1/ptm/m/n/10 : when \T1/zi4/m/n/10 zero.print \T1/ptm/m /n/10 is not Underfull \hbox (badness 10000) in paragraph at lines 15686--15690 []\T1/zi4/m/n/10 formatC \T1/ptm/m/n/10 does not nec-es-sar-ily align the num-b ers on the dec-i-mal point, so Underfull \hbox (badness 2426) in paragraph at lines 15686--15690 \T1/zi4/m/n/10 formatC(c(6.11,13.1),digits = 2,format = "fg") \T1/ptm/m/n/10 gi ves \T1/zi4/m/n/10 c("6.1"," 13")\T1/ptm/m/n/10 . If you want [240] Underfull \hbox (badness 2035) in paragraph at lines 15725--15729 []\T1/ptm/m/n/10 The de-fault for \T1/zi4/m/n/10 decimal.mark \T1/ptm/m/n/10 in \T1/zi4/m/n/10 formatC() \T1/ptm/m/n/10 was changed in \T1/phv/m/n/10 R \T1/pt m/m/n/10 3.2.0: for use within [241] Underfull \vbox (badness 10000) has occurred while \output is active [242] [243] [244] [245] [246] [247] [248] [249] [250] Underfull \hbox (badness 2452) in paragraph at lines 16338--16342 []\T1/zi4/m/n/10 gctorture2 \T1/ptm/m/n/10 can also be in-voked via en-vi-ron-m ent 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 16338--16342 \T1/ptm/m/n/10 sion. \T1/zi4/m/n/10 R_GCTORTURE \T1/ptm/m/n/10 cor-re-sponds 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 [251] [252] Underfull \hbox (badness 1092) in paragraph at lines 16511--16516 [][]\T1/zi4/m/n/10 library.dynam[][][]\T1/ptm/m/n/10 , or can be found af-ter t he DLL has been loaded us-ing [253] [254] [255] [256] Underfull \hbox (badness 6741) in paragraph at lines 16764--16768 \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/ptm/m/n/10 , [257] [258] [259] [260] [261] [262] [263] [264] [265] [266] Underfull \vbox (badness 10000) has occurred while \output is active [267] [268] [269] [270] [271] [272] [273] [274] [275] [276] [277] Underfull \hbox (badness 1478) in paragraph at lines 18113--18116 []\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 [278] [279] [280] [281] Underfull \hbox (badness 10000) in paragraph at lines 18381--18383 []\T1/ptm/m/n/10 the `root' col-la-tion: see [][]$\T1/zi4/m/n/10 https : / / ww w . unicode . org / reports / tr35 / [282] [283] [284] [285] [286] [287] [288] [289] [290] Underfull \hbox (badness 1442) in paragraph at lines 18980--18982 []\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 [291] [292] [293] [294] [295] Underfull \hbox (badness 10000) in paragraph at lines 19311--19317 [296] [297] [298] [299] Underfull \hbox (badness 1248) in paragraph at lines 19556--19559 []\T1/zi4/m/n/10 is.atomic \T1/ptm/m/n/10 is true for the [][]atomic[][][] type s (\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 , [300] [301] [302] [303] Underfull \hbox (badness 4739) in paragraph at lines 19819--19821 []\T1/ptm/m/n/10 numeric scalar >= 0. Smaller dif-fer-ences are not con-sid-ere d, see [304] [305] [306] [307] Underfull \hbox (badness 1603) in paragraph at lines 20046--20049 []\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 . [308] [309] [310] Underfull \hbox (badness 1596) in paragraph at lines 20273--20278 \T1/ptm/m/n/10 trix or, if \T1/zi4/m/n/10 simplify = "array"\T1/ptm/m/n/10 , an ar-ray if ap-pro-pri-ate, by ap-ply-ing \T1/zi4/m/n/10 simplify2array()\T1/ptm /m/n/10 . [311] [312] [313] [314] [315] [316] [317] [318] [319] [320] Underfull \hbox (badness 2469) in paragraph at lines 20878--20883 []\T1/ptm/m/n/10 In late 2017 a \T1/zi4/m/n/10 libcurl \T1/ptm/m/n/10 in-stal-l a-tion was seen di-vided into two li-braries, \T1/zi4/m/n/10 libcurl \T1/ptm/m/ n/10 and [321] Underfull \hbox (badness 10000) in paragraph at lines 20972--20976 []\T1/ptm/m/n/10 By de-fault \T1/zi4/m/n/10 R_LIBS \T1/ptm/m/n/10 is un-set, an d \T1/zi4/m/n/10 R_LIBS_USER \T1/ptm/m/n/10 is set to di-rec-tory [322] [323] [324] Underfull \hbox (badness 1014) in paragraph at lines 21142--21147 []\T1/ptm/m/n/10 Normally \T1/zi4/m/n/10 library \T1/ptm/m/n/10 re-turns (in-vi s-i-bly) the list of at-tached pack-ages, but \T1/zi4/m/n/10 TRUE \T1/ptm/m/n/1 0 or \T1/zi4/m/n/10 FALSE \T1/ptm/m/n/10 if [325] [326] [327] [328] [329] [330] [331] [332] [333] [334] [335] [336] [337] Underfull \hbox (badness 1264) in paragraph at lines 21991--21996 []\T1/ptm/m/n/10 character string. The fol-low-ing cat-e-gories should al-ways be sup-ported: [338] Underfull \hbox (badness 4441) in paragraph at lines 22020--22023 []\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/z i4/m/n/10 "LC_CTYPE"\T1/ptm/m/n/10 , [339] [340] [341] [342] [343] [344] [345] [346] [347] [348] [349] Underfull \hbox (badness 6047) in paragraph at lines 22794--22796 []\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)) == [350] [351] [352] [353] [354] [355] [356] [357] [358] [359] [360] [361] [362] [363] [364] [365] [366] [367] Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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/$[][]\T1/ptm/m/n/10 , Underfull \hbox (badness 10000) in paragraph at lines 23874--23880 [][]$\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 : [368] [369] [370] [371] [372] [373] [374] Underfull \hbox (badness 2790) in paragraph at lines 24375--24378 []\T1/zi4/m/n/10 packageStartupMessage \T1/ptm/m/n/10 is a vari-ant whose mes-s ages can be sup-pressed sep-a-rately by Underfull \hbox (badness 1571) in paragraph at lines 24375--24378 \T1/zi4/m/n/10 suppressPackageStartupMessages\T1/ptm/m/n/10 . (They are still m es-sages, so can be sup-pressed by [375] [376] [377] [378] [379] Underfull \hbox (badness 1194) in paragraph at lines 24664--24667 []\T1/ptm/m/n/10 The de-fault method for \T1/zi4/m/n/10 anyNA \T1/ptm/m/n/10 ha n-dles atomic vec-tors with-out a class and \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 . It calls [380] [381] [382] Underfull \hbox (badness 2368) in paragraph at lines 24871--24877 []\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-re-spond- ing list, i.e., Underfull \hbox (badness 4981) in paragraph at lines 24871--24877 \T1/zi4/m/n/10 names(as.list(env,all.names = TRUE)) \T1/ptm/m/n/10 which are al so given by [][]\T1/zi4/m/n/10 ls[][][](env,all.names = [383] [384] [385] [386] [387] [388] Underfull \hbox (badness 10000) in paragraph at lines 25256--25259 []\T1/ptm/m/n/10 optional [][]\T1/zi4/m/n/10 logical[][][] \T1/ptm/m/n/10 even- tu-ally to be passed to \T1/zi4/m/n/10 print()\T1/ptm/m/n/10 , used by [389] [390] [391] [392] [393] [394] [395] [396] [397] [398] Underfull \hbox (badness 10000) in paragraph at lines 25876--25878 []\T1/zi4/m/n/10 isNamespaceLoaded(pkg) \T1/ptm/m/n/10 is equiv-a-lent to but m ore ef-fi-cient than \T1/zi4/m/n/10 pkg %in% [399] [400] [401] [402] [403] [404] [405] [406] [407] [408] [409] [410] Underfull \hbox (badness 1038) in paragraph at lines 26737--26745 []\T1/ptm/m/n/10 the pack-ages that are at-tached by de-fault when \T1/phv/m/n/ 10 R \T1/ptm/m/n/10 starts up. Ini-tially Underfull \hbox (badness 1735) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set from value of the en-vi-ron-ment vari-able \T1/zi4/m/n/10 R_ DEFAULT_PACKAGES\T1/ptm/m/n/10 , or if that is un- Underfull \hbox (badness 1292) in paragraph at lines 26737--26745 \T1/ptm/m/n/10 set to \T1/zi4/m/n/10 c("datasets","utils","grDevices","graphics ","stats","methods")\T1/ptm/m/n/10 . (Set Underfull \hbox (badness 1881) in paragraph at lines 26746--26749 []\T1/ptm/m/n/10 integer value con-trol-ling the print-ing of lan-guage con-str ucts which are [411] Underfull \hbox (badness 6220) in paragraph at lines 26770--26772 []\T1/ptm/m/n/10 Extra command-line ar-gu-ment(s) for non-default meth-ods: see [412] Underfull \hbox (badness 2142) in paragraph at lines 26911--26915 []\T1/ptm/m/n/10 the de-fault pa-per for-mat used by [][]\T1/zi4/m/n/10 postscr ipt[][][]\T1/ptm/m/n/10 ; set by en-vi-ron-ment vari-able [413] Underfull \hbox (badness 1968) in paragraph at lines 26968--26973 []\T1/ptm/m/n/10 the com-mand used by [][]\T1/zi4/m/n/10 postscript[][][] \T1/p tm/m/n/10 for print-ing; set by en-vi-ron-ment vari-able [414] [415] [416] Underfull \hbox (badness 10000) in paragraph at lines 27262--27268 []\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 27262--27268 \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 27262--27268 \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 27275--27278 []\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/ptm/m/n/10 and [417] Underfull \hbox (badness 2689) in paragraph at lines 27301--27303 []\T1/ptm/m/n/10 optional in-te-ger vec-tor for set-ting ports of the in-ter-na l HTTP server, see Underfull \hbox (badness 10000) in paragraph at lines 27336--27341 []\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 27342--27353 \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 27342--27353 \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 use and Underfull \hbox (badness 7203) in paragraph at lines 27354--27357 []\T1/ptm/m/n/10 default email-ing method used by [][]\T1/zi4/m/n/10 create.pos t[][][] \T1/ptm/m/n/10 and hence [][]\T1/zi4/m/n/10 bug.report[][][] \T1/ptm/m/ n/10 and [418] [419] Underfull \vbox (badness 3803) has occurred while \output is active [420] [421] [422] [423] [424] [425] Underfull \hbox (badness 10000) in paragraph at lines 27901--27904 []\T1/zi4/m/n/10 str2expression(s) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 str2lang(s ) \T1/ptm/m/n/10 re-turn spe-cial ver-sions of [426] Underfull \hbox (badness 7925) in paragraph at lines 27982--27986 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 vec-to r \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 1622) in paragraph at lines 27982--27986 [][]\T1/zi4/m/n/10 parse[][][](text = s,keep.source=FALSE)\T1/ptm/m/n/10 , whic h is al-ways of type ([][]\T1/zi4/m/n/10 typeof[][][]\T1/ptm/m/n/10 ) and [][]\ T1/zi4/m/n/10 class[][][] [427] Underfull \hbox (badness 6125) in paragraph at lines 27987--27996 []\T1/ptm/m/n/10 for a [][]\T1/zi4/m/n/10 character[][][] \T1/ptm/m/n/10 string \T1/zi4/m/n/10 s\T1/ptm/m/n/10 , \T1/zi4/m/n/10 str2lang(s) \T1/ptm/m/n/10 cor -re-sponds to [][]\T1/zi4/m/n/10 parse[][][](text = [428] [429] [430] [431] [432] [433] [434] [435] [436] [437] [438] [439] [440] [441] [442] Underfull \hbox (badness 2726) in paragraph at lines 28935--28938 []\T1/ptm/m/n/10 character string (or \T1/zi4/m/n/10 NULL\T1/ptm/m/n/10 ) in-di -cat-ing [][]\T1/zi4/m/n/10 NA[][][] \T1/ptm/m/n/10 val-ues in printed out-put, see [443] [444] [445] [446] [447] [448] [449] [450] [451] [452] [453] [454] Underfull \hbox (badness 1603) in paragraph at lines 29685--29688 []\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 [][]$\T1/zi4/m/n/10 https : / / www . [455] [456] [457] [458] [459] [460] [461] [462] [463] [464] [465] [466] [467] [468] [469] Underfull \hbox (badness 1533) in paragraph at lines 30713--30716 []\T1/ptm/m/n/10 As with all com-piled code, mis-specifying these func-tions ca n crash \T1/phv/m/n/10 R\T1/ptm/m/n/10 . Do in-clude the [470] [471] [472] Underfull \hbox (badness 1163) in paragraph at lines 30876--30887 []\T1/ptm/m/n/10 If all com-po-nents are dif-fer-ent (and no \T1/zi4/m/n/10 NA\ T1/ptm/m/n/10 s), the ranks are well de-fined, with val-ues in [473] [474] [475] [476] [477] [478] [479] Underfull \vbox (badness 10000) has occurred while \output is active [480] [481] [482] [483] [484] [485] [486] [487] [488] [489] [490] [491] [492] [493] [494] [495] [496] [497] [498] Underfull \hbox (badness 10000) in paragraph at lines 32539--32543 []\T1/zi4/m/n/10 regexpr \T1/ptm/m/n/10 and \T1/zi4/m/n/10 gregexpr \T1/ptm/m/n /10 sup-port `named cap-ture'. If groups are named, e.g., Underfull \hbox (badness 1221) in paragraph at lines 32539--32543 \T1/zi4/m/n/10 "(?[A-Z][a-z]+)" \T1/ptm/m/n/10 then the po-si-tions of t he matches are also re-turned by name. Underfull \hbox (badness 3557) in paragraph at lines 32560--32562 []\T1/ptm/m/n/10 The POSIX 1003.2 stan-dard at [][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919799 / Underfull \hbox (badness 1122) in paragraph at lines 32563--32567 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 pcre2pattern \T1/ptm/m/n/10 or \T1/zi4/m/n/ 10 pcrepattern man \T1/ptm/m/n/10 page (found as part of [][]$\T1/zi4/m/n/10 ht tps : / / www . pcre . org / [499] [500] Underfull \vbox (badness 10000) has occurred while \output is active [501] [502] [503] [504] [505] [506] [507] [508] Underfull \hbox (badness 1655) in paragraph at lines 33157--33159 []\T1/ptm/m/n/10 a vec-tor (atomic, not a list) for \T1/zi4/m/n/10 rle()\T1/ptm /m/n/10 ; an ob-ject of class \T1/zi4/m/n/10 "rle" \T1/ptm/m/n/10 for [509] [510] [511] [512] [513] [514] [515] [516] [517] [518] [519] [520] [521] [522] [523] [524] [525] [526] Underfull \hbox (badness 2261) in paragraph at lines 34349--34354 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 strip.white \T1/ptm/m/n/10 is of length 1, i t ap-plies to all fields; oth-er-wise, if [527] Underfull \hbox (badness 10000) in paragraph at lines 34376--34382 []\T1/ptm/m/n/10 The es-capes which are in-ter-preted are the con-trol char-ac- ters Underfull \hbox (badness 1484) in paragraph at lines 34376--34382 \T1/ptm/m/n/10 `\T1/zi4/m/n/10 \a,\b,\f,\n,\r,\t,\v\T1/ptm/m/n/10 ' and oc-tal and hex-adec-i-mal rep-re-sen-ta-tions like [528] [529] [530] [531] [532] [533] [534] [535] [536] [537] [538] [539] [540] [541] [542] [543] [544] [545] [546] [547] [548] [549] [550] [551] [552] [553] [554] [555] [556] [557] [558] [559] [560] [561] [562] [563] [564] [565] [566] [567] Underfull \hbox (badness 10000) in paragraph at lines 36987--36989 [][][]$\T1/zi4/m/n/10 https : / / pubs . opengroup . org / onlinepubs / 9699919 799 / functions / snprintf . html$[][] \T1/ptm/m/n/10 for [568] Underfull \vbox (badness 10000) has occurred while \output is active [569] [570] [571] [572] [573] [574] [575] [576] Underfull \hbox (badness 1072) in paragraph at lines 37584--37588 []\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 37589--37593 []\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/zi4/m/n/10 - -no-init-file\T1/ptm/m/n/10 ', [577] Underfull \hbox (badness 10000) in paragraph at lines 37619--37625 []\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 37619--37625 \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 37619--37625 \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 37634--37641 []\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 37634--37641 \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 37634--37641 \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 37634--37641 \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 [578] [579] [580] Underfull \hbox (badness 2644) in paragraph at lines 37866--37870 []\T1/ptm/m/n/10 alternative to \T1/zi4/m/n/10 exprs \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 ...\T1/ptm/m/n/10 : an `expression-like' ob-ject, typ-i-cally an [581] [582] [583] Underfull \hbox (badness 1142) in paragraph at lines 38018--38024 []\T1/ptm/m/n/10 A char-ac-ter string. The de-fault for the \T1/zi4/m/n/10 form at \T1/ptm/m/n/10 meth-ods is \T1/zi4/m/n/10 "%Y-%m-%d [584] [585] [586] [587] [588] [589] [590] [591] [592] [593] [594] [595] [596] [597] [598] [599] [600] [601] [602] [603] Underfull \hbox (badness 1565) in paragraph at lines 39297--39299 []\T1/ptm/m/n/10 integer code used in \T1/zi4/m/n/10 quantile(*,type=quantile.t ype) \T1/ptm/m/n/10 for the de-fault [604] [605] [606] [607] [608] [609] [610] [611] [612] [613] Underfull \hbox (badness 1137) in paragraph at lines 39887--39893 []\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 Underfull \hbox (badness 4967) in paragraph at lines 39906--39911 []\T1/ptm/m/n/10 If a file-name starts with \T1/zi4/m/n/10 . \T1/ptm/m/n/10 thi s may need to be matched ex-plic-itly: for ex-am-ple [614] [615] Underfull \hbox (badness 1616) in paragraph at lines 40026--40031 \T1/zi4/m/n/10 system("id") \T1/ptm/m/n/10 is much more portable on Unix-alikes , pro-vided only the POSIX op-tions [616] [617] [618] [619] [620] [621] [622] [623] [624] Underfull \hbox (badness 1472) in paragraph at lines 40568--40571 []\T1/ptm/m/n/10 logical. If \T1/zi4/m/n/10 TRUE\T1/ptm/m/n/10 , func-tions kee p their source in-clud-ing com-ments, see [625] [626] [627] [628] [629] [630] [631] [632] [633] [634] [635] [636] [637] Underfull \vbox (badness 3803) has occurred while \output is active [638] Underfull \hbox (badness 10000) in paragraph at lines 41487--41491 []\T1/ptm/m/n/10 On 64-bit plat-forms \T1/zi4/m/n/10 bin \T1/ptm/m/n/10 can hav e $\OT1/cmr/m/n/10 2[]$ \T1/ptm/m/n/10 or more el-e-ments (i.e., \T1/zi4/m/n/10 length(bin) > [639] [640] [641] [642] Underfull \hbox (badness 10000) in paragraph at lines 41738--41741 [][][]\T1/zi4/m/n/10 getTaskCallbackNames[][][] [][]taskCallbackManager[][][] [ ][]$https : / / developer . r-[]project . org / [643] [644] [645] Underfull \hbox (badness 10000) in paragraph at lines 41922--41926 [][][]\T1/zi4/m/n/10 addTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 r emoveTaskCallback[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 taskCallbackManager[ ][][]\T1/ptm/m/n/10 \ [][]$\T1/zi4/m/n/10 https : / / developer . [646] [647] [648] [649] [650] [651] [652] [653] [654] Underfull \hbox (badness 10000) in paragraph at lines 42547--42550 [][][]$\T1/zi4/m/n/10 https : / / en . wikipedia . org / wiki / Time _ zone$[][ ] \T1/ptm/m/n/10 and [][]$\T1/zi4/m/n/10 https : / / data . iana . org / time-[ ]zones / [655] [656] [657] [658] [659] [660] Underfull \vbox (badness 10000) has occurred while \output is active [661] [662] [663] [664] [665] [666] [667] [668] Underfull \hbox (badness 1990) in paragraph at lines 43469--43477 []\T1/zi4/m/n/10 try \T1/ptm/m/n/10 eval-u-ates an ex-pres-sion and traps any e r-rors that oc-cur dur-ing the eval-u-a-tion. If Underfull \hbox (badness 4846) in paragraph at lines 43469--43477 \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 [669] [670] [671] [672] [673] [674] [675] [676] Underfull \hbox (badness 1917) in paragraph at lines 43975--43982 []\T1/ptm/m/n/10 When a func-tion call-ing \T1/zi4/m/n/10 UseMethod("fun") \T1/ ptm/m/n/10 is ap-plied to an ob-ject with class at-tribute [677] [678] [679] [680] [681] [682] [683] Underfull \hbox (badness 2452) in paragraph at lines 44428--44434 [][][]\T1/zi4/m/n/10 file[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/10 file.access[ ][][]\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 , [684] [685] [686] [687] [688] [689] Underfull \hbox (badness 3668) in paragraph at lines 44802--44804 []\T1/ptm/m/n/10 logical, in-di-cat-ing if the call should be out-put im-me-di- ately, even if [690] [691] Underfull \hbox (badness 2401) in paragraph at lines 44932--44936 []\T1/ptm/m/n/10 See the de-scrip-tion of [][]\T1/zi4/m/n/10 options[][][]("war n") \T1/ptm/m/n/10 for the cir-cum-stances un-der which there is a [692] [693] [694] Underfull \hbox (badness 2111) in paragraph at lines 45139--45144 \T1/ptm/m/n/10 If [][]\T1/zi4/m/n/10 names[][][](.dimnames) \T1/ptm/m/n/10 is n ot empty, these are used as col-umn names. Underfull \hbox (badness 10000) in paragraph at lines 45160--45165 []\T1/ptm/m/n/10 If \T1/zi4/m/n/10 arr.ind == TRUE \T1/ptm/m/n/10 and \T1/zi4/m /n/10 x \T1/ptm/m/n/10 is an [][]\T1/zi4/m/n/10 array[][][] \T1/ptm/m/n/10 (has a [][]\T1/zi4/m/n/10 dim[][][] \T1/ptm/m/n/10 at-tribute), the re-sult is [695] [696] [697] [698] Underfull \hbox (badness 4001) in paragraph at lines 45385--45387 []\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 . [699] [700] [701] [702] [703] Underfull \hbox (badness 5417) in paragraph at lines 45750--45754 []\T1/zi4/m/n/10 .packages() \T1/ptm/m/n/10 re-turns the names of the cur-rentl y at-tached pack-ages \T1/ptm/m/it/10 in-vis-i-bly \T1/ptm/m/n/10 whereas [704] Underfull \hbox (badness 10000) in paragraph at lines 45811--45815 []\T1/zi4/m/n/10 .standard_regexps \T1/ptm/m/n/10 re-turns a list of `stan-dard ' reg-exps, in-clud-ing el-e-ments named [705] [706]) (./compiler-pkg.tex Chapter 2. [707] [708] [709] [710]) (./datasets-pkg.tex Chapter 3. [711] [712] [713] [714] [715] [716] [717] [718] [719] [720] [721] [722] [723] [724] [725] [726] [727] 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. [728] [729] [730] [731] [732] [733] [734] [735] [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]) (./grDevices-pkg.tex [794] Chapter 4. [795] [796] [797] [798] [799] Underfull \hbox (badness 3158) 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/ptm/m/n/1 0 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 [800] [801] [802] [803] [804] [805] [806] [807] [808] [809] 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) and \T1/zi4/m/n/10 "NA" \T1/ptm/m/n/10 mean trans-par-ent, which can also be spec-i -fied as [810] [811] [812] [813] 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 [814] [815] 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 / [816] [817] Underfull \hbox (badness 1852) in paragraph at lines 1405--1408 []\T1/zi4/m/n/10 densCols \T1/ptm/m/n/10 com-putes and re-turns the set of col- ors that will be used in plot-ting, call-ing [818] [819] [820] 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 \T1/zi4/m/n/ 10 "no"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "yes" \T1/ptm/m/n/10 and [821] [822] [823] [824] [825] [826] Underfull \hbox (badness 1325) in paragraph at lines 2017--2027 \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 "pngalpha"\T1/ptm/m/n/ 10 , \T1/zi4/m/n/10 "bmp16"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "bmp16m" "bmp256"\T1 /ptm/m/n/10 , \T1/zi4/m/n/10 "bmp32b"\T1/ptm/m/n/10 , [827] [828] Underfull \hbox (badness 10000) in paragraph at lines 2129--2131 []\T1/ptm/m/n/10 The de-fault value when a de-vice is opened is taken from the set-ting of [829] [830] [831] Underfull \hbox (badness 6758) in paragraph at lines 2308--2311 []\T1/ptm/m/n/10 Some other op-tions which can be use-ful (see your Ghostscript doc-u-men-ta-tion) are [832] [833] [834] [835] [836] [837] [838] [839] [840] [841] Underfull \hbox (badness 10000) in paragraph at lines 2919--2920 [842] [843] [844] [845] [846] [847] [848] [849] [850] Underfull \hbox (badness 10000) in paragraph at lines 3493--3498 []\T1/zi4/m/n/10 nclass.FD \T1/ptm/m/n/10 uses the Freedman-Diaconis choice bas ed on the inter-quartile range [851] [852] [853] Underfull \vbox (badness 3803) has occurred while \output is active [854] [855] [856] [857] Underfull \vbox (badness 3803) has occurred while \output is active [858] Underfull \hbox (badness 10000) in paragraph at lines 3992--3995 []\T1/ptm/m/n/10 For use with \T1/zi4/m/n/10 onefile = FALSE \T1/ptm/m/n/10 giv e a C in-te-ger for-mat such as [859] [860] [861] [862] [863] [864] [865] [866] [867] [868] [869] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 [][][]$\T1/zi4/m/n/10 https : / / www . adobe . com / content / dam / acom / en / devnet / actionscript / articles / PLRM . pdf$[][] Underfull \hbox (badness 10000) in paragraph at lines 4732--4737 \T1/ptm/m/n/10 or PDF [][]$\T1/zi4/m/n/10 https : / / www . adobe . com / conte nt / dam / acom / en / devnet / acrobat / pdfs / pdf _ Underfull \hbox (badness 1881) in paragraph at lines 4732--4737 \T1/zi4/m/n/10 reference _ 1-[]7 . pdf$[][] \T1/ptm/m/n/10 and in dec-i-mal, oc -tal and hex at [][]$\T1/zi4/m/n/10 https : / / www . stat . auckland . ac . [870] [871] [872] Underfull \hbox (badness 1584) in paragraph at lines 4888--4890 []\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 4892--4899 \T1/ptm/m/n/10 The lat-ter will only be avail-able if the sys-tem was com-piled with sup- [873] [874] [875] [876] Underfull \hbox (badness 1377) in paragraph at lines 5198--5203 []\T1/ptm/m/n/10 a char-ac-ter string de-scrib-ing the color model: cur-rently al-lowed val-ues [877] Underfull \hbox (badness 1418) in paragraph at lines 5274--5281 \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 "Helvetica-Narrow"\T1/ptm /m/n/10 , [878] Underfull \hbox (badness 1755) in paragraph at lines 5292--5294 []\T1/ptm/m/n/10 Another type of fam-ily makes use of CID-keyed fonts for East Asian lan-guages -- see [879] Underfull \hbox (badness 1377) in paragraph at lines 5403--5408 []\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 [880] Underfull \hbox (badness 7344) in paragraph at lines 5472--5474 []\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 [881] Underfull \vbox (badness 3803) has occurred while \output is active [882] Underfull \hbox (badness 2035) in paragraph at lines 5610--5619 []\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 5610--5619 \T1/ptm/m/n/10 vided: \T1/zi4/m/n/10 "AvantGarde"\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 "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-Narrow"\T1/ptm/m/n/1 0 , Underfull \hbox (badness 10000) in paragraph at lines 5610--5619 \T1/zi4/m/n/10 "NewCenturySchoolbook"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "Palatino" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "Times"\T1/ptm/m/n/10 ; \T1/zi4/m/n/10 "URWG othic"\T1/ptm/m/n/10 , \T1/zi4/m/n/10 "URWBookman"\T1/ptm/m/n/10 , [883] [884] Underfull \hbox (badness 10000) in paragraph at lines 5678--5680 []\T1/zi4/m/n/10 BousungEG-Light-GB \T1/ptm/m/n/10 can be found at [][]$\T1/zi4 /m/n/10 https : / / ftp . gnu . org / pub / non-[]gnu / [885] [886] Underfull \hbox (badness 1546) in paragraph at lines 5820--5828 []\T1/ptm/m/n/10 arguments \T1/zi4/m/n/10 onefile\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 family\T1/ptm/m/n/10 , \T1/zi4/m/n/10 title\T1/ptm/m/n/10 , \T1/zi4/m/n/10 fo nts\T1/ptm/m/n/10 , \T1/zi4/m/n/10 encoding\T1/ptm/m/n/10 , \T1/zi4/m/n/10 bg\T 1/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 , [887] [888] [889] [890] [891] [892] [893] [894] Underfull \hbox (badness 10000) in paragraph at lines 6358--6361 []\T1/zi4/m/n/10 rgb2hsv \T1/ptm/m/n/10 trans-forms col-ors from RGB space (red /green/blue) into HSV space [895] [896] Underfull \vbox (badness 3803) has occurred while \output is active [897] [898] [899] [900] [901] [902] [903] [904] [905] [906] [907] [908] Underfull \hbox (badness 1189) in paragraph at lines 7184--7186 []\T1/ptm/m/n/10 for cairo types, the type of anti-aliasing (if any) to be used . One of [909] Underfull \hbox (badness 10000) in paragraph at lines 7289--7291 []\T1/zi4/m/n/10 "-*-mincho-%s-%s-*-*-%d-*-*-*-*-*-*-*" \T1/ptm/m/n/10 for CJK lan-guages and [910] [911] [912] [913] [914] Underfull \hbox (badness 3780) in paragraph at lines 7603--7609 []\T1/ptm/m/n/10 the font fam-ily to be used. This must be one of \T1/zi4/m/n/1 0 "AvantGarde"\T1/ptm/m/n/10 , [915] [916] [917] Underfull \hbox (badness 2680) in paragraph at lines 7805--7807 []\T1/ptm/m/n/10 multiplicities (pos-i-tive in-te-gers); i.e., \T1/zi4/m/n/10 n umber[i] \T1/ptm/m/n/10 is the mul-ti-plic-ity of [918] [919] [920]) (./graphics-pkg.tex Chapter 5. [921] [922] [923] [924] [925] [926] [927] [928] [929] [930] [931] [932] [933] [934] [935] [936] Overfull \hbox (12.71341pt too wide) in paragraph at lines 981--981 [] \T1/zi4/m/n/9 main = "barplot(Freq ~ Class + Survived, *)", ylab = " # {passengers}", legend.text = TRUE)[] [937] [938] [939] [940] [941] [942] Underfull \hbox (badness 4634) in paragraph at lines 1355--1358 [][][]\T1/zi4/m/n/10 boxplot.default[][][] \T1/ptm/m/n/10 which al-ready works nowa-days with data.frames; [][]\T1/zi4/m/n/10 boxplot.formula[][][]\T1/ptm/m/n /10 , [943] [944] [945] [946] [947] [948] [949] [950] [951] [952] [953] [954] [955] [956] [957] [958] [959] Underfull \hbox (badness 1728) in paragraph at lines 2333--2335 []\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 [960] Underfull \hbox (badness 1009) in paragraph at lines 2426--2433 \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 [961] [962] [963] [964] [965] [966] [967] [968] [969] [970] [971] [972] [973] [974] [975] [976] [977] [978] [979] [980] [981] [982] Underfull \vbox (badness 10000) has occurred while \output is active [983] Underfull \vbox (badness 10000) has occurred while \output is active [984] [985] [986] [987] [988] [989] [990] [991] [992] [993] [994] [995] Underfull \hbox (badness 3229) in paragraph at lines 4602--4607 []\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 [996] [997] [998] [999] [1000] Underfull \hbox (badness 10000) in paragraph at lines 5032--5038 []\T1/ptm/b/it/10 R.O.\T1/ptm/m/n/10 ; size of de-fault char-ac-ter \T1/zi4/m/n /10 (width,height) \T1/ptm/m/n/10 in user co-or-di-nate units. Underfull \hbox (badness 5908) in paragraph at lines 5032--5038 \T1/zi4/m/n/10 par("cxy") \T1/ptm/m/n/10 is \T1/zi4/m/n/10 par("cin")/par("pin" ) \T1/ptm/m/n/10 scaled to user co-or-di-nates. Note that [1001] [1002] Underfull \hbox (badness 10000) in paragraph at lines 5163--5166 [1003 ] Underfull \hbox (badness 10000) in paragraph at lines 5224--5226 Underfull \vbox (badness 10000) has occurred while \output is active [1004] [1005 ] [1006] Underfull \hbox (badness 10000) in paragraph at lines 5414--5416 []\T1/ptm/m/n/10 The five stan-dard dash-dot line types (\T1/zi4/m/n/10 lty = 2 :6\T1/ptm/m/n/10 ) cor-re-spond to [1007] Underfull \vbox (badness 3803) has occurred while \output is active [1008] [1009] [1010] [1011] [1012] [1013] [1014]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.plot}) has been already used, duplicate ignored \relax l.5896 \aliasA{plot}{plot.default}{plot} [1015] [1016] [1017] [1018] [1019] [1020] [1021] [1022] [1023] [1024] [1025] [1026] [1027] [1028] Overfull \hbox (31.57222pt too wide) in paragraph at lines 6801--6802 [][] [1029 ] [1030] Underfull \vbox (badness 3803) has occurred while \output is active [1031] [1032] [1033] [1034] [1035] [1036] [1037] [1038] [1039] [1040] [1041] [1042] Underfull \hbox (badness 2012) in paragraph at lines 7623--7626 []\T1/ptm/m/n/10 For each \T1/zi4/m/n/10 i\T1/ptm/m/n/10 , a line seg-ment is d rawn be-tween the point \T1/zi4/m/n/10 (x0[i],y0[i]) \T1/ptm/m/n/10 and the poi nt [1043] [1044] [1045] [1046] [1047] [1048] [1049] [1050] [1051] [1052] [1053] [1054] [1055] [1056] [1057] [1058] [1059] [1060] [1061] [1062] [1063] Underfull \hbox (badness 10000) in paragraph at lines 8889--8891 []\T1/ptm/m/n/10 Sub-title (at bot-tom) us-ing font, size and color Underfull \hbox (badness 10000) in paragraph at lines 8891--8893 []\T1/ptm/m/n/10 X axis la-bel us-ing font, size and color [1064]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.uni ts}) has been already used, duplicate ignored \relax l.8971 \HeaderA{units}{Graphical Units}{units} [1065] [1066] [1067] [1068]) (./grid-pkg.tex Chapter 6. [1069] [1070] [1071] [1072] [1073] [1074] [1075] [1076] Underfull \hbox (badness 2680) in paragraph at lines 486--489 []\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-cu-la-tio n of [1077] [1078] [1079] [1080] [1081] [1082] [1083] [1084] [1085] [1086] [1087] Underfull \hbox (badness 4279) in paragraph at lines 1112--1121 [][][]\T1/ptm/m/n/10 Grid[][][], [][]\T1/zi4/m/n/10 pushViewport[][][]\T1/ptm/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 seekViewport[][][]\T1/pt m/m/n/10 , [][]\T1/zi4/m/n/10 upViewport[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/n/ 10 unit[][][]\T1/ptm/m/n/10 , [1088] [1089] [1090] [1091] [1092] [1093] [1094] [1095] [1096] [1097] [1098] [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] [1130] [1131] [1132] [1133] [1134] [1135] [1136] [1137] [1138] [1139] [1140] [1141] [1142] [1143] [1144] [1145] [1146] Underfull \hbox (badness 1067) in paragraph at lines 4537--4540 []\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 [1147] [1148] [1149] [1150] Underfull \hbox (badness 7256) in paragraph at lines 4782--4784 []\T1/ptm/m/n/10 A char-ac-ter or [][]ex-pres-sion[][][] vec-tor. Other ob-ject s are co-erced by [1151] [1152] [1153] [1154] [1155] [1156] [1157] [1158] [1159] [1160] [1161] [1162] [1163] [1164] [1165] [1166] [1167] [1168] [1169] [1170] [1171] [1172] [1173] [1174] [1175] [1176] [1177] [1178] [1179] [1180] [1181] [1182] [1183] [1184] Underfull \hbox (badness 1824) in paragraph at lines 6753--6756 []\T1/ptm/m/n/10 This can be use-ful for re-turn-ing to your start-ing point by do-ing some-thing like \T1/zi4/m/n/10 depth [1185] [1186] [1187] [1188]) (./methods-pkg.tex Chapter 7. [1189] [1190] [1191] [1192] [1193] [1194] [1195] [1196] Underfull \vbox (badness 10000) has occurred while \output is active [1197] Underfull \vbox (badness 10000) has occurred while \output is active [1198] [1199] [1200] [1201] [1202] [1203] [1204] [1205] [1206] [1207] 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-tends \ T1/zi4/m/n/10 "character" \T1/ptm/m/n/10 and has a slot \T1/zi4/m/n/10 "package "\T1/ptm/m/n/10 , also of class [1208] [1209] [1210] [1211] [1212] [1213] [1214] [1215] Underfull \hbox (badness 2181) in paragraph at lines 1932--1939 []\T1/ptm/m/n/10 Two vir-tual classes are sup-plied to test for ref-er-ence ob- jects: \T1/zi4/m/n/10 is(x,"refClass") \T1/ptm/m/n/10 tests [1216] 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 c an 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/1 0 it calls \T1/zi4/m/n/10 evalSource \T1/ptm/m/n/10 to ob-tain the [1217] [1218] [1219] Underfull \hbox (badness 2213) in paragraph at lines 2214--2219 []\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 = [1220] [1221] [1222] [1223] [1224] Underfull \hbox (badness 10000) in paragraph at lines 2574--2577 []\T1/ptm/m/n/10 As you might ex-pect [][]\T1/zi4/m/n/10 setGeneric[][][] \T1/p tm/m/n/10 and [][]\T1/zi4/m/n/10 setGroupGeneric[][][] \T1/ptm/m/n/10 cre-ate o b-jects of class [1225] [1226] Underfull \hbox (badness 1132) in paragraph at lines 2714--2718 []\T1/ptm/m/n/10 In \T1/zi4/m/n/10 getGenerics\T1/ptm/m/n/10 , if \T1/zi4/m/n/1 0 TRUE\T1/ptm/m/n/10 , the \T1/zi4/m/n/10 package \T1/ptm/m/n/10 slot of the re -turned re-sult is in [1227] Underfull \hbox (badness 1033) in paragraph at lines 2746--2751 \T1/ptm/m/n/10 In ad-di-tion, \T1/zi4/m/n/10 removeGeneric \T1/ptm/m/n/10 re-mo ves the func-tion it-self; \T1/zi4/m/n/10 removeMethods \T1/ptm/m/n/10 re-store s the [1228] [1229] [1230] [1231] [1232] [1233] [1234] Underfull \hbox (badness 1102) in paragraph at lines 3303--3305 []\T1/zi4/m/n/10 getPackageName \T1/ptm/m/n/10 re-turns the character-string na me of the pack-age (with-out the ex-tra-ne-ous [1235] [1236] [1237] [1238] [1239] Underfull \hbox (badness 10000) in paragraph at lines 3634--3639 []\T1/ptm/m/n/10 The \T1/zi4/m/n/10 initialize \T1/ptm/m/n/10 method for these classes takes spe-cial ar-gu-ments [1240] Underfull \hbox (badness 10000) in paragraph at lines 3642--3651 []\T1/ptm/m/n/10 The [1241] Underfull \hbox (badness 10000) in paragraph at lines 3762--3763 [] \T1/zi4/m/n/10 Pos <-setClass("Pos",slots = c(latitude = "numeric",longitude = "numeric",altitude [1242] [1243] [1244] [1245] [1246] [1247] [1248] [1249] [1250] [1251] [1252] Underfull \hbox (badness 1769) in paragraph at lines 4472--4478 []\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 4472--4478 \T1/zi4/m/n/10 MethodDefinition\T1/ptm/m/n/10 , or an ex-ten-sion. Class [][]\T 1/zi4/m/n/10 MethodWithNext[][][] \T1/ptm/m/n/10 for an ex-ten-sion used by [1253] [1254] [1255] [1256] [1257] [1258] [1259] [1260] [1261] [1262] Underfull \vbox (badness 10000) has occurred while \output is active [1263] [1264] [1265] Underfull \hbox (badness 4036) in paragraph at lines 5437--5440 []\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 [1266] Underfull \hbox (badness 3803) in paragraph at lines 5512--5514 []\T1/ptm/m/n/10 arguments to spec-ify prop-er-ties of the new ob-ject, to be p assed to [1267] [1268] [1269] [1270] Underfull \hbox (badness 1087) in paragraph at lines 5744--5749 []\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 [1271] [1272] [1273] [1274] [1275] [1276] [1277] [1278] Underfull \hbox (badness 1675) in paragraph at lines 6451--6457 \T1/ptm/m/n/10 can be con-verted ex-plic-itly as \T1/zi4/m/n/10 externalRefMeth od(f)\T1/ptm/m/n/10 , which re-turns an ob-ject of class [1279] [1280] [1281] [1282] Underfull \vbox (badness 10000) has occurred while \output is active [1283] [1284] [1285] [1286]pdfTeX warning (ext4): destination with the same identifier (name{Rfn.S4}) has been already used, duplicate ignored \relax l.6973 \aliasA{S4}{S3Part}{S4} [1287] [1288] [1289]pdfTeX warning (ext4): desti nation with the same identifier (name{Rfn.Complex}) has been already used, dupl icate ignored \relax l.7229 \aliasA{Complex}{S4groupGeneric}{Complex} pdfTeX warning (ext4): destinat ion with the same identifier (name{Rfn.Logic}) has been already used, duplicate ignored \relax l.7231 \aliasA{Logic}{S4groupGeneric}{Logic} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Math}) has been already used, duplicate igno red \relax l.7232 \aliasA{Math}{S4groupGeneric}{Math} pdfTeX warning (ext4): destination wi th the same identifier (name{Rfn.Ops}) has been already used, duplicate ignored \relax l.7234 \aliasA{Ops}{S4groupGeneric}{Ops} pdfTeX warning (ext4): destination with the same identifier (name{Rfn.Summary}) has been already used, duplicate ignor ed \relax l.7235 \aliasA{Summary}{S4groupGeneric}{Summary} [1290] Underfull \hbox (badness 2050) in paragraph at lines 7296--7300 []\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 [1291] [1292] [1293] Underfull \hbox (badness 1286) in paragraph at lines 7484--7486 []\T1/ptm/m/n/10 for \T1/zi4/m/n/10 .selectSuperClasses() \T1/ptm/m/n/10 only, a [][]\T1/zi4/m/n/10 list[][][] \T1/ptm/m/n/10 of class ex-ten-sions, typ-i-cal ly [1294] [1295] [1296] [1297] [1298] [1299] [1300] [1301] [1302] [1303] [1304] [1305] [1306] [1307] [1308] [1309] [1310] [1311] [1312] [1313] [1314] [1315] [1316] [1317] [1318] [1319] [1320] Underfull \vbox (badness 10000) has occurred while \output is active [1321] [1322] [1323] [1324] [1325] [1326] [1327] [1328] Underfull \hbox (badness 1137) in paragraph at lines 10011--10019 []\T1/ptm/m/n/10 Objects can be cre-ated by calls of the form \T1/zi4/m/n/10 ne w("signature",functionDef,...)\T1/ptm/m/n/10 . The [1329] [1330] [1331] [1332] [1333] [1334] [1335] Underfull \hbox (badness 1852) in paragraph at lines 10564--10568 []\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., [1336] [1337] [1338] [1339]) (./parallel-pkg.tex [1340] 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/zi4 /m/n/10 "L\TS1/zi4/m/n/10 '\T1/zi4/m/n/10 Ecuyer-CMRG"\T1/ptm/m/n/10 ' [][]RNG[ ][][]: see [1341] [1342] [1343] [1344] [1345] Underfull \hbox (badness 1320) in paragraph at lines 300--303 []\T1/ptm/m/n/10 It has meth-ods to do so for Linux, ma-cOS, FreeBSD, OpenBSD, So-laris and Win-dows. [1346] [1347] [1348] [1349] [1350] [1351] [1352] [1353] [1354] [1355] [1356] [1357] [1358] [1359] [1360] [1361] [1362] Underfull \hbox (badness 3386) in paragraph at lines 1401--1404 []\T1/ptm/m/n/10 An in-te-ger vec-tor of length 7 as given by \T1/zi4/m/n/10 .R andom.seed \T1/ptm/m/n/10 when the [1363] [1364] [1365]) (./splines-pkg.tex [1366] 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 [1367] [1368] [1369] [1370] [1371] [1372] [1373] [1374] [1375] [1376] [1377] [1378] [1379] [1380] [1381] [1382]) (./stats-pkg.tex Chapter 10. [1383] [1384] [1385] [1386] [1387] [1388] [1389] [1390] [1391] [1392] [1393] [1394] [1395] [1396] Underfull \hbox (badness 1412) in paragraph at lines 882--884 []\T1/ptm/m/n/10 A fit-ted model ob-ject, for ex-am-ple from \T1/zi4/m/n/10 lm \T1/ptm/m/n/10 or \T1/zi4/m/n/10 aov\T1/ptm/m/n/10 , or a for-mula for [1397] [1398] [1399] [1400] [1401] [1402] [1403] [1404] Underfull \hbox (badness 2503) in paragraph at lines 1364--1367 []\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 , [1405] [1406] [1407] Underfull \hbox (badness 10000) in paragraph at lines 1544--1548 []\T1/ptm/m/n/10 An ob-ject of class \T1/zi4/m/n/10 c("aov","lm") \T1/ptm/m/n/1 0 or for mul-ti-ple re-sponses of class [1408] [1409] [1410] [1411] [1412] [1413] [1414] [1415] [1416] [1417] [1418] [1419] [1420] [1421] [1422] [1423] [1424] [1425] [1426] [1427] [1428] [1429] [1430] [1431] [1432] [1433] [1434] [1435] [1436] [1437] [1438] Underfull \hbox (badness 2503) in paragraph at lines 3514--3517 []\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 , [1439] [1440] [1441] [1442] [1443] [1444] [1445] [1446] [1447] [1448] [1449] [1450] [1451] [1452] [1453] Underfull \hbox (badness 1127) in paragraph at lines 4430--4433 []\T1/ptm/m/n/10 standardized resid-u-als, \T1/zi4/m/n/10 (observed -expected) / sqrt(V)\T1/ptm/m/n/10 , where \T1/zi4/m/n/10 V \T1/ptm/m/n/10 is the [1454] [1455] [1456] [1457] [1458] Underfull \hbox (badness 3989) in paragraph at lines 4770--4777 []\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 = [1459] [1460] [1461] [1462] [1463] [1464] [1465] [1466] [1467] [1468] Underfull \hbox (badness 2556) in paragraph at lines 5406--5409 []\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 "filter"\T1/p tm/m/n/10 . For Underfull \hbox (badness 2932) in paragraph at lines 5423--5425 []\T1/ptm/m/n/10 Note that the usual def-i-ni-tion of con-vo-lu-tion of two se- quences \T1/zi4/m/n/10 x \T1/ptm/m/n/10 and \T1/zi4/m/n/10 y \T1/ptm/m/n/10 is given by [1469] [1470] [1471] [1472] [1473] [1474] [1475] Underfull \hbox (badness 2503) in paragraph at lines 5820--5824 []\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 , [1476] [1477] [1478] [1479] [1480] [1481] [1482] [1483] [1484] [1485] [1486] [1487] [1488] Underfull \hbox (badness 7081) in paragraph at lines 6614--6617 []\T1/ptm/m/n/10 Objects of class \T1/zi4/m/n/10 "hclust" \T1/ptm/m/n/10 can 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 6618--6620 []\T1/zi4/m/n/10 rev.dendrogram \T1/ptm/m/n/10 sim-ply re-turns the den-dro-gra m \T1/zi4/m/n/10 x \T1/ptm/m/n/10 with re-versed nodes, see also [1489] [1490] [1491] [1492] [1493] Underfull \vbox (badness 3803) has occurred while \output is active [1494] [1495] [1496] [1497] [1498] [1499] [1500] [1501] Underfull \hbox (badness 10000) in paragraph at lines 7465--7468 []\T1/ptm/m/n/10 optionally, the dis-tance method used; re-sult-ing from [][]\T 1/zi4/m/n/10 dist[][][]()\T1/ptm/m/n/10 , the [1502] [1503] [1504] [1505] [1506] [1507] [1508] [1509] [1510] [1511] [1512] [1513] [1514] [1515] [1516] [1517] [1518] [1519] [1520] [1521] [1522] [1523] Underfull \vbox (badness 10000) has occurred while \output is active [1524] [1525] [1526] [1527] [1528] Underfull \hbox (badness 2626) in paragraph at lines 9144--9147 []\T1/ptm/m/n/10 Either \T1/zi4/m/n/10 "convolution" \T1/ptm/m/n/10 or \T1/zi4/ m/n/10 "recursive" \T1/ptm/m/n/10 (and can be ab-bre-vi-ated). If [1529] [1530] Underfull \hbox (badness 2503) in paragraph at lines 9251--9255 []\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 , [1531] [1532] [1533] [1534] [1535] [1536] [1537] [1538] [1539] [1540] [1541] [1542] [1543] [1544] [1545] [1546] [1547] [1548] [1549] [1550] Underfull \hbox (badness 4518) in paragraph at lines 10587--10592 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1551] [1552] [1553] [1554] [1555] Underfull \hbox (badness 2142) in paragraph at lines 10948--10951 []\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 ^^@ [1556] Underfull \hbox (badness 1253) in paragraph at lines 10967--10970 []\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, [1557] Underfull \hbox (badness 1708) in paragraph at lines 11029--11033 []\T1/ptm/m/n/10 the type of resid-u-als which should be re-turned. The al-ter- na-tives are: [1558] [1559] [1560] [1561] [1562] [1563] Underfull \hbox (badness 1694) in paragraph at lines 11425--11428 []\T1/ptm/m/n/10 character vec-tors with row and col-umn la-bels to use; these de-fault to [1564] [1565] [1566] [1567] [1568] [1569] [1570] [1571]pdfTeX warning (ext4): d estination with the same identifier (name{Rfn.hat}) has been already used, dupl icate ignored \relax l.11909 \aliasA{hat}{influence.measures}{hat} [1572] [1573] Underfull \hbox (badness 1484) in paragraph at lines 12051--12053 []\T1/ptm/m/n/10 The func-tion \T1/zi4/m/n/10 hat() \T1/ptm/m/n/10 ex-ists main ly for S (ver-sion 2) com-pat-i-bil-ity; we rec-om-mend us-ing [1574] [1575] [1576] [1577] [1578] [1579] [1580] [1581] [1582] [1583] Underfull \hbox (badness 10000) in paragraph at lines 12650--12652 []\T1/ptm/m/n/10 tolerance even-tu-ally passed to [][]\T1/zi4/m/n/10 solve.defa ult[][][] \T1/ptm/m/n/10 when \T1/zi4/m/n/10 SSinit = [1584] [1585] [1586] [1587] [1588] [1589] Underfull \hbox (badness 2894) in paragraph at lines 12986--12990 []\T1/ptm/m/n/10 logical or in-te-ger num-ber, cur-rently only used in the de-f ault method [1590] [1591] [1592] [1593] [1594] [1595] [1596] [1597] [1598] [1599] [1600] [1601] Underfull \hbox (badness 4518) in paragraph at lines 13737--13742 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1602] [1603] [1604] [1605] [1606] [1607] [1608] [1609] [1610] Underfull \hbox (badness 4518) in paragraph at lines 14390--14395 []\T1/ptm/m/n/10 an op-tional data frame, list or en-vi-ron-ment (or ob-ject co -ercible by [1611] [1612] [1613] Underfull \hbox (badness 8151) in paragraph at lines 14528--14532 []\T1/ptm/m/n/10 Only for the (de-fault) case \T1/zi4/m/n/10 (surface = "interp olate",statistics = Underfull \hbox (badness 1199) in paragraph at lines 14535--14537 []\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 [1614] [1615] [1616] [1617] [1618] [1619] [1620] [1621] [1622] [1623] [1624] [1625] [1626] [1627] [1628] [1629] [1630] [1631] Underfull \hbox (badness 2503) in paragraph at lines 15611--15615 []\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 , [1632] [1633] [1634] [1635] [1636] [1637] [1638] [1639] Underfull \hbox (badness 10000) in paragraph at lines 16124--16130 []\T1/zi4/m/n/10 model.extract(m,"offset") \T1/ptm/m/n/10 and \T1/zi4/m/n/10 mo del.extract(m,"response") \T1/ptm/m/n/10 are equiv-a-lent to Underfull \hbox (badness 1867) in paragraph at lines 16124--16130 \T1/zi4/m/n/10 model.offset(m) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 model.response (m) \T1/ptm/m/n/10 re-spec-tively. \T1/zi4/m/n/10 model.offset \T1/ptm/m/n/10 s ums any terms [1640] [1641] [1642] [1643] [1644] [1645] [1646] [1647] [1648] [1649] [1650] [1651] [1652] [1653] [1654] [1655] [1656] [1657] [1658] [1659] [1660] [1661] [1662] [1663] [1664] [1665] Underfull \hbox (badness 1158) in paragraph at lines 17767--17770 []\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- [1666] [1667] Underfull \vbox (badness 3803) has occurred while \output is active [1668] Underfull \vbox (badness 10000) has occurred while \output is active [1669] Underfull \vbox (badness 10000) has occurred while \output is active [1670] [1671] [1672] [1673] [1674] [1675] [1676] [1677] [1678] [1679] [1680] [1681] [1682] [1683] Underfull \hbox (badness 1377) in paragraph at lines 18790--18795 []\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 18795--18798 []\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 18808--18812 []\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 18808--18812 \T1/ptm/m/n/10 the value by a fac-tor of \T1/zi4/m/n/10 reltol * (abs(val) + re ltol) \T1/ptm/m/n/10 at a step. De-faults to Underfull \hbox (badness 2662) in paragraph at lines 18816--18820 []\T1/ptm/m/n/10 The fre-quency of re-ports for the \T1/zi4/m/n/10 "BFGS"\T1/pt m/m/n/10 , \T1/zi4/m/n/10 "L-BFGS-B" \T1/ptm/m/n/10 and \T1/zi4/m/n/10 "SANN" \ T1/ptm/m/n/10 meth-ods if [1684] [1685] [1686] Underfull \vbox (badness 10000) has occurred while \output is active [1687] Overfull \hbox (15.73795pt too wide) in paragraph at lines 19041--19041 []\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 19044--19044 []\T1/zi4/m/n/9 system.time(ro <- optim(1, function(x) (x-pi)^2, control=list( warn.1d.NelderMead = FALSE)))[] [1688] [1689] [1690] [1691] [1692] [1693] [1694] Underfull \hbox (badness 1337) in paragraph at lines 19503--19506 []\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 [1695] [1696] [1697] [1698] [1699] [1700] [1701] [1702] [1703] Underfull \hbox (badness 3049) in paragraph at lines 20001--20005 []\T1/ptm/m/n/10 In the Cook's dis-tance vs leverage/(1-leverage) plot, con-tou rs of stan-dard-ized resid-u-als [1704] [1705] [1706] [1707] Underfull \hbox (badness 1194) in paragraph at lines 20264--20267 []\T1/ptm/m/n/10 coverage prob-a-bil-ity for con-fi-dence in-ter-val. Plot-ting of the con-fi-dence [1708] [1709] [1710] [1711] [1712] [1713] [1714] Underfull \hbox (badness 2503) in paragraph at lines 20643--20646 []\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 , Underfull \hbox (badness 3919) in paragraph at lines 20670--20672 []\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 [1715] [1716] [1717] [1718] [1719] [1720] [1721] [1722] [1723] [1724] [1725] [1726] [1727] [1728] [1729] [1730] [1731] [1732] Underfull \hbox (badness 10000) in paragraph at lines 21748--21754 []\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/10 , [][] \T1/zi4/m/n/10 predict.arima0[][][]\T1/ptm/m/n/10 , [1733] [1734] [1735] [1736] [1737] [1738] [1739] [1740] [1741] [1742] [1743] [1744] [1745] [1746] [1747] [1748] [1749] [1750] [1751] [1752] [1753] [1754] [1755] Underfull \hbox (badness 1337) in paragraph at lines 23105--23111 []\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 [1756] [1757] [1758] [1759] [1760] [1761] [1762] Underfull \hbox (badness 3780) in paragraph at lines 23530--23533 []\T1/ptm/m/n/10 used only when \T1/zi4/m/n/10 names \T1/ptm/m/n/10 is true: th e pre-ci-sion to use when for-mat- Underfull \hbox (badness 1152) in paragraph at lines 23530--23533 \T1/ptm/m/n/10 ting the per-cent-ages. In \T1/phv/m/n/10 R \T1/ptm/m/n/10 ver-s ions up to 4.0.x, this had been set to [1763] Underfull \hbox (badness 10000) in paragraph at lines 23671--23672 []\T1/ptm/m/n/10 Wikipedia: [][]$\T1/zi4/m/n/10 https : / / en . wikipedia . or g / wiki / Quantile # Estimating _ quantiles _ from _ a _ [1764] [1765] [1766] [1767] [1768] Underfull \hbox (badness 10000) in paragraph at lines 23955--23958 []\T1/ptm/m/n/10 Optional vec-tor with clus-ter mem-ber-ships as re-turned by Underfull \hbox (badness 4205) in paragraph at lines 23955--23958 \T1/zi4/m/n/10 cutree(hclust.obj,k = k)\T1/ptm/m/n/10 , can be spec-i-fied for ef-fi-ciency if al-ready [1769] [1770] [1771] [1772] [1773] [1774] [1775] [1776] [1777] [1778] [1779] Underfull \hbox (badness 1824) in paragraph at lines 24632--24638 []\T1/ptm/m/n/10 Here, all the NAs in \T1/zi4/m/n/10 x \T1/ptm/m/n/10 are first re-placed by al-ter- Underfull \hbox (badness 1033) in paragraph at lines 24632--24638 \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 [1780] Underfull \hbox (badness 10000) in paragraph at lines 24653--24656 []\T1/ptm/m/n/10 Apart from the end val-ues, the re-sult \T1/zi4/m/n/10 y = run med(x,k) \T1/ptm/m/n/10 sim-ply has \T1/zi4/m/n/10 y[j] = Underfull \hbox (badness 3690) in paragraph at lines 24722--24726 [][][]\T1/zi4/m/n/10 smoothEnds[][][] \T1/ptm/m/n/10 which im-ple-ments Tukey's end point rule and is called by de-fault from [1781] Underfull \vbox (badness 3803) has occurred while \output is active [1782] [1783] [1784] [1785] [1786] [1787] [1788] [1789] Underfull \hbox (badness 2165) in paragraph at lines 25234--25239 []\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/ptm/m/n/1 0 , [][]\T1/zi4/m/n/10 SSasympOff[][][]\T1/ptm/m/n/10 , [1790] [1791] [1792] [1793] Underfull \hbox (badness 1867) in paragraph at lines 25439--25441 []\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 25454--25458 []\T1/ptm/m/n/10 where \T1/zi4/m/n/10 NN <-[][]nobs[][][](object,use.fallback = use.fallback) \T1/ptm/m/n/10 and \T1/zi4/m/n/10 PP [1794] [1795] [1796] [1797] [1798] [1799] [1800] [1801] [1802] [1803] [1804] [1805] [1806] [1807] [1808] [1809] [1810] [1811] [1812] [1813] [1814] [1815] [1816] [1817] Underfull \vbox (badness 10000) has occurred while \output is active [1818] Underfull \hbox (badness 3514) in paragraph at lines 27017--27022 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1819] [1820] [1821] [1822] Overfull \hbox (2.23795pt too wide) in paragraph at lines 27251--27251 [] \T1/zi4/m/n/9 quote({f(t[0.5]) == frac(phi[1],2)}~{} %=>% {}~~{t[0.5] == frac(log(2), e^{phi[2]})}),[] [1823] Underfull \hbox (badness 3514) in paragraph at lines 27287--27293 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1824] Overfull \hbox (20.23795pt too wide) in paragraph at lines 27344--27344 []\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 27346--27346 [] \T1/zi4/m/n/9 control = list(scaleOffset=1, printEval=TRUE, tol=1 e-11, nDcentral=TRUE), trace=TRUE)[] [1825] [1826] [1827] Underfull \hbox (badness 3514) in paragraph at lines 27520--27525 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1828] [1829] Underfull \hbox (badness 3514) in paragraph at lines 27607--27612 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1830] Underfull \hbox (badness 3514) in paragraph at lines 27672--27677 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1831] [1832] Underfull \hbox (badness 3514) in paragraph at lines 27766--27771 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 input\ T1/ptm/m/n/10 . It is the value of the ex-pres-sion [1833] Underfull \hbox (badness 6691) in paragraph at lines 27858--27863 []\T1/ptm/m/n/10 a nu-meric vec-tor of the same length as \T1/zi4/m/n/10 x\T1/p tm/m/n/10 . It is the value of the ex-pres-sion [1834] [1835] [1836] [1837] [1838] [1839] [1840] [1841] Underfull \hbox (badness 4024) in paragraph at lines 28349--28352 []\T1/ptm/m/n/10 the span (in lags) of the loess win-dow for trend ex-trac-tion , which [1842] [1843] [1844] [1845] [1846] [1847] [1848] [1849] [1850] [1851] Underfull \hbox (badness 5431) in paragraph at lines 28955--28957 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1852] [1853] [1854] [1855] Underfull \hbox (badness 5431) in paragraph at lines 29165--29168 []\T1/ptm/m/n/10 the cor-re-la-tion ma-trix cor-re-spond-ing to the above \T1/z i4/m/n/10 cov.unscaled\T1/ptm/m/n/10 , if [1856] [1857] [1858] [1859] [1860] Underfull \hbox (badness 1337) in paragraph at lines 29480--29484 []\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 [1861] [1862] [1863] [1864] [1865] Underfull \hbox (badness 1616) in paragraph at lines 29792--29795 []\T1/ptm/m/n/10 color, plot-ting char-ac-ter ex-pan-sion and type for par-tial resid-u-als, when [1866] [1867] [1868] [1869] [1870] [1871] [1872] [1873] [1874] [1875] [1876] [1877] [1878] [1879] [1880] [1881] [1882] [1883] [1884] Underfull \hbox (badness 3557) in paragraph at lines 30927--30931 []\T1/ptm/m/n/10 Setting \T1/zi4/m/n/10 extendInt \T1/ptm/m/n/10 to a non-\T1/z i4/m/n/10 "no" \T1/ptm/m/n/10 string, means search-ing for the cor-rect \T1/zi4 /m/n/10 interval = [1885] [1886] [1887] Underfull \vbox (badness 10000) has occurred while \output is active [1888] [1889] [1890] Underfull \hbox (badness 1337) in paragraph at lines 31291--31295 []\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 [1891] [1892] [1893] [1894] [1895] [1896] [1897] [1898] [1899] Underfull \hbox (badness 1337) in paragraph at lines 31820--31824 []\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 Underfull \hbox (badness 10000) in paragraph at lines 31834--31836 []\T1/ptm/m/n/10 (when \T1/zi4/m/n/10 conf.int \T1/ptm/m/n/10 is true:) a pos-i -tive nu-meric tol-er-ance, used in [1900] [1901] [1902] Overfull \hbox (0.71648pt too wide) in paragraph at lines 32027--32027 []\T1/zi4/m/n/9 wilcox.test( 4:2, 3:1, paired=TRUE) # Warning: canno t compute exact p-value with ties[] [1903] [1904] [1905] Overfull \hbox (19.71954pt too wide) in paragraph at lines 32188--32188 [] \T1/zi4/m/n/10 frequency = NULL, deltat = NULL, extend = FALSE, ts.eps = getOption("ts.eps"), ...)[] [1906] [1907] [1908] [1909] [1910]) (./stats4-pkg.tex Chapter 11. [1911] [1912] [1913] Underfull \vbox (badness 10000) has occurred while \output is active [1914] Underfull \vbox (badness 10000) has occurred while \output is active [1915] [1916] [1917] [1918]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} [1919] [1920] [1921]) (./tcltk-pkg.tex [1922] Chapter 12. [1923] [1924] [1925] [1926] [1927] [1928] [1929] Underfull \vbox (badness 10000) has occurred while \output is active [1930] Underfull \vbox (badness 10000) has occurred while \output is active [1931] 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-ing any Tk or Tcl com-mand by sim-ply run-ning [1932] [1933] [1934] [1935] [1936] Underfull \vbox (badness 10000) has occurred while \output is active [1937] [1938] [1939] [1940] [1941] [1942] [1943] [1944]) (./tools-pkg.tex Chapter 13. [1945] LaTeX Font Warning: Font shape `T1/zi4/m/it' undefined (Font) using `T1/zi4/m/n' instead on input line 72. [1946] 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 b e sig-nalled, but \T1/ptm/m/it/10 not \T1/ptm/m/n/10 an er-ror, whereas [1947] [1948] 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 bibe ntry[][][] \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 formatInProcee dings\T1/ptm/m/n/10 , \T1/zi4/m/n/10 formatManual\T1/ptm/m/n/10 , \T1/zi4/m/n/1 0 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/zi4/m/n/10 forma tTechreport \T1/ptm/m/n/10 and [1949] [1950] 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-gine to use. Over-rides any [1951] 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 [1952] [1953] [1954] [1955] [1956] [1957] [1958] [1959] [1960] [1961] [1962] [1963] 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 [1964] 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/z i4/m/n/10 summarize_check_packages_in_dir_timings\T1/ptm/m/n/10 , [1965] [1966] [1967] [1968] [1969] 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, with its func-tion-al-ity in-te-grated into that of [1970] [1971] Underfull \hbox (badness 7981) in paragraph at lines 1707--1715 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of 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 [1972] [1973] [1974] [1975]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} [1976] [1977] [1978] [1979] [1980] 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}",[] [1981] [1982] [1983] Underfull \hbox (badness 7981) in paragraph at lines 2391--2399 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of de-pen-den-cies, a sub-set of [1984] [1985] [1986] [1987] [1988] [1989] [1990] 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. [1991] [1992] [1993] [1994] [1995] Underfull \hbox (badness 1424) in paragraph at lines 3177--3179 []\T1/zi4/m/it/10 NULL \T1/ptm/m/n/10 or a named (by top-ics) char-ac-ter vec-t or of links, as re-turned by [1996] [1997] [1998] [1999] [2000] [2001] [2002] [2003] [2004] [2005] [2006] Underfull \hbox (badness 10000) in paragraph at lines 3878--3880 []\T1/ptm/m/n/10 additional ar-gu-ments use when prepar-ing the files to be run , [2007] [2008] Underfull \hbox (badness 10000) in paragraph at lines 4017--4020 []\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 [2009] [2010] Underfull \hbox (badness 1137) in paragraph at lines 4119--4121 []\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 [2011] [2012] [2013] [2014] [2015] Underfull \hbox (badness 1796) in paragraph at lines 4427--4432 []\T1/ptm/m/n/10 Users should ex-pect sig-nif-i-cantly smaller speedups over \T 1/zi4/m/it/10 write_PACKAGES \T1/ptm/m/n/10 in the \T1/zi4/m/it/10 type == [2016] Underfull \hbox (badness 1838) in paragraph at lines 4501--4507 []\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 4501--4507 \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 [2017] [2018] [2019] [2020] Underfull \hbox (badness 2197) in paragraph at lines 4776--4786 []\T1/ptm/m/n/10 The de-fault cor-re-sponds to the fields needed by [][]\T1/zi4 /m/it/10 available.packages[][][]\T1/ptm/m/n/10 : [2021] Underfull \hbox (badness 1571) in paragraph at lines 4842--4846 []\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 [2022] [2023] [2024]) (./utils-pkg.tex Chapter 14. [2025] 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 `\T 1/zi4/m/it/10 insertions\T1/ptm/m/n/10 ', [2026] [2027] [2028] [2029] [2030] Underfull \hbox (badness 10000) in paragraph at lines 378--383 \T1/zi4/m/it/10 c("vertical","horizontal","cascade","minimize","restore") \T1/p tm/m/n/10 with [2031] [2032] [2033] [2034] [2035] Underfull \hbox (badness 10000) in paragraph at lines 720--726 []\T1/ptm/m/n/10 Functions \T1/zi4/m/it/10 aspell_package_Rd_files\T1/ptm/m/n/1 0 , \T1/zi4/m/it/10 aspell_package_vignettes\T1/ptm/m/n/10 , Underfull \hbox (badness 3343) in paragraph at lines 720--726 \T1/zi4/m/it/10 aspell_package_R_files \T1/ptm/m/n/10 and \T1/zi4/m/it/10 aspel l_package_C_files \T1/ptm/m/n/10 per-form spell check-ing on the [2036] [2037] Underfull \hbox (badness 5847) in paragraph at lines 857--863 []\T1/ptm/m/n/10 Argument \T1/zi4/m/it/10 filters \T1/ptm/m/n/10 can be used to se-lect which of the pack-ages on the repos-i-to- Underfull \hbox (badness 4229) in paragraph at lines 857--863 \T1/ptm/m/n/10 ries are re-ported. It is called with its de-fault value (\T1/zi 4/m/it/10 NULL\T1/ptm/m/n/10 ) by func-tions such as [2038] Underfull \hbox (badness 3861) in paragraph at lines 925--930 []\T1/ptm/m/n/10 Where pro-vided by the repos-i-tory, fields \T1/zi4/m/it/10 "O S_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 , [2039] [2040] [2041] Underfull \hbox (badness 3323) in paragraph at lines 1108--1116 []\T1/ptm/m/n/10 (\T1/ptm/m/it/10 deprecated\T1/ptm/m/n/10 , use \T1/zi4/m/it/1 0 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 1108--1116 \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 1108--1116 \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 3735) in paragraph at lines 1108--1116 \T1/ptm/m/n/10 taken as [][]\T1/zi4/m/it/10 getOption[][][]("citation.bibtex.ma x",1) \T1/ptm/m/n/10 which is \T1/zi4/m/it/10 1 \T1/ptm/m/n/10 typ-i-cally. Underfull \hbox (badness 1817) in paragraph at lines 1108--1116 \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 1120--1122 []\T1/ptm/m/n/10 logical in-di-cat-ing if biben-tries should be sorted, us-ing [2042] [2043] [2044] [2045] [2046] [2047] [2048] [2049] Underfull \hbox (badness 1371) in paragraph at lines 1625--1627 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2050] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 1695. [2051] [2052] [2053] [2054] [2055] [2056] [2057] [2058] [2059] [2060] Underfull \hbox (badness 2057) in paragraph at lines 2346--2348 []\T1/ptm/m/n/10 None for \T1/zi4/m/it/10 chooseCRANmirror()\T1/ptm/m/n/10 , th is func-tion is in-voked for its side ef-fect of up-dat-ing [2061] [2062] [2063] [2064] [2065] [2066]pdfTeX warning (ext4): destination wit h the same identifier (name{Rfn.clipboard}) has been already used, duplicate ig nored \relax l.2697 ... the Clipboard in MS Windows}{clipboard} [2067] [2068] [2069] Underfull \hbox (badness 1748) in paragraph at lines 2864--2867 []\T1/ptm/m/n/10 A [][]\T1/zi4/m/it/10 list[][][] \T1/ptm/m/n/10 or [][]\T1/zi4 /m/it/10 array[][][]\T1/ptm/m/n/10 , see the \T1/zi4/m/it/10 simplify \T1/ptm/m /n/10 ar-gu-ment above. In the lat-ter case, the iden-tity [2070] [2071] [2072] [2073] [2074] [2075] Underfull \hbox (badness 5388) in paragraph at lines 3274--3278 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .tab\T1/ptm/m/n/10 ', `\T1/zi4/ m/it/10 .txt\T1/ptm/m/n/10 ' or `\T1/zi4/m/it/10 .TXT\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[][][](...,header = Underfull \hbox (badness 2285) in paragraph at lines 3279--3282 []\T1/ptm/m/n/10 files end-ing `\T1/zi4/m/it/10 .csv\T1/ptm/m/n/10 ' or `\T1/zi 4/m/it/10 .CSV\T1/ptm/m/n/10 ' are read us-ing [][]\T1/zi4/m/it/10 read.table[] [][](...,header = TRUE,sep = [2076] [2077] [2078] [2079] [2080] [2081] [2082] [2083] [2084] [2085] [2086] [2087] Underfull \hbox (badness 1430) in paragraph at lines 4063--4071 []\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 [2088] Underfull \hbox (badness 1231) in paragraph at lines 4140--4152 []\T1/ptm/m/n/10 Usernames and pass-words can be set for HTTP proxy trans-fers via en-vi-ron-ment vari-able [2089] [2090] Underfull \hbox (badness 10000) in paragraph at lines 4297--4299 []\T1/ptm/m/n/10 additional ar-gu-ments to be passed to [][]\T1/zi4/m/it/10 dow nload.file[][][] \T1/ptm/m/n/10 and [2091] [2092] [2093] [2094] [2095] [2096] [2097] [2098] [2099] [2100] [2101]pdf TeX warning (ext4): destination with the same identifier (name{Rfn.format}) has been already used, duplicate ignored \relax l.4995 ...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.4995 ...mat Unordered and Ordered Lists}{format} [2102] [2103] [2104] [2105] [2106] [2107] [2108] [2109] Underfull \hbox (badness 1622) in paragraph at lines 5514--5518 []\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 [2110] [2111] [2112] [2113] [2114] [2115] [2116] [2117] Underfull \vbox (badness 3803) has occurred while \output is active [2118] [2119] [2120] [2121] LaTeX Font Warning: Font shape `T1/zi4/m/sl' undefined (Font) using `T1/zi4/m/it' instead on input line 6232. Underfull \hbox (badness 1371) in paragraph at lines 6236--6238 []\T1/ptm/m/n/10 additional named ar-gu-ments such as \T1/zi4/m/it/10 method \T 1/ptm/m/n/10 and \T1/zi4/m/it/10 ccaddress \T1/ptm/m/n/10 to pass to [2122] Underfull \hbox (badness 1502) in paragraph at lines 6325--6330 []\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 6325--6330 \T1/ptm/m/n/10 words' are re-ally cat-e-gories: the stan-dard cat-e-gories are listed in file [2123] [2124] [2125] Underfull \hbox (badness 10000) in paragraph at lines 6498--6507 []\T1/ptm/m/n/10 One of the links on the in-dex page is the HTML pack-age in-de x, [2126] Underfull \hbox (badness 2150) in paragraph at lines 6562--6565 []\T1/ptm/m/n/10 a char-ac-ter vec-tor list-ing the types of doc-u-men-ta-tion to search. See [2127] [2128] Underfull \hbox (badness 3118) in paragraph at lines 6701--6703 []\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 [2129] [2130] [2131] Underfull \hbox (badness 1325) in paragraph at lines 6880--6884 []\T1/ptm/m/n/10 a ma-trix as re-turned by [][]\T1/zi4/m/it/10 available.packag es[][][] \T1/ptm/m/n/10 list-ing pack-ages avail-able Underfull \hbox (badness 4726) in paragraph at lines 6892--6898 \T1/ptm/m/n/10 used if \T1/zi4/m/it/10 repos = NULL\T1/ptm/m/n/10 . Can also be a char-ac-ter vec-tor, a sub-set of [2132] Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 []\T1/ptm/m/n/10 an op-tional char-ac-ter vec-tor of ad-di-tional op-tion(s) to be Underfull \hbox (badness 10000) in paragraph at lines 6964--6967 \T1/ptm/m/n/10 passed to \T1/zi4/m/it/10 R CMD INSTALL \T1/ptm/m/n/10 for a sou rce pack-age in-stall. E.g., Underfull \hbox (badness 1424) in paragraph at lines 6972--6975 []\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 [2133] Underfull \hbox (badness 3219) in paragraph at lines 7043--7050 []\T1/ptm/m/n/10 An al-ter-na-tive (and the cur-rent de-fault) is \T1/zi4/m/it/ 10 "both" \T1/ptm/m/n/10 which means `use bi-nary if avail- Underfull \hbox (badness 5175) in paragraph at lines 7043--7050 \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 7043--7050 \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 7043--7050 [][]\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 silently Underfull \hbox (badness 2932) in paragraph at lines 7051--7054 []\T1/ptm/m/n/10 Using pack-ages with \T1/zi4/m/it/10 type = "source" \T1/ptm/m /n/10 al-ways works pro-vided the pack-age con-tains no [2134] Underfull \hbox (badness 1546) in paragraph at lines 7177--7180 []\T1/ptm/m/n/10 For other repos-i-to-ries, us-ing \T1/zi4/m/it/10 available.pa ckages(filters = "OS_type")[\T1/ptm/m/sl/10 pkgname\T1/zi4/m/it/10 ,] \T1/ptm/m /n/10 will [2135] Underfull \hbox (badness 10000) in paragraph at lines 7210--7215 [][][]\T1/zi4/m/it/10 update.packages[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/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 , [2136] [2137] [2138] [2139] [2140] [2141] [2142] [2143] [2144] [2145] [2146] [2147] [2148] Underfull \hbox (badness 10000) in paragraph at lines 7997--7999 []\T1/ptm/m/n/10 typically the re-sult of \T1/zi4/m/it/10 methods(..)\T1/ptm/m/ n/10 , an \T1/phv/m/n/10 R \T1/ptm/m/n/10 ob-ject of S3 class [2149] [2150] [2151] [2152] [2153] [2154] [2155] [2156] [2157] [2158] [2159] [2160] Underfull \hbox (badness 10000) in paragraph at lines 8735--8737 []\T1/ptm/m/n/10 for \T1/zi4/m/it/10 asDateBuilt()\T1/ptm/m/n/10 , a [][]\T1/zi 4/m/it/10 character[][][] \T1/ptm/m/n/10 string as from Underfull \hbox (badness 2310) in paragraph at lines 8757--8762 []\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, [2161] [2162] [2163] [2164] [2165] [2166] [2167] [2168] [2169] Underfull \hbox (badness 1248) in paragraph at lines 9283--9287 []\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 [2170] Underfull \hbox (badness 1789) in paragraph at lines 9363--9365 []\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 [2171] [2172] [2173] [2174] [2175] [2176] [2177] [2178] [2179] [2180] [2181] [2182] Underfull \hbox (badness 1097) in paragraph at lines 10200--10203 []\T1/ptm/m/n/10 The name \T1/zi4/m/it/10 "clipboard" \T1/ptm/m/n/10 may also b e used on Win-dows, in which case [2183] [2184] Underfull \hbox (badness 3000) in paragraph at lines 10336--10341 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \T1/ptm/m/it/10 f\T1/ptm/m/n/10 ormatted in-put; [][]\T1/zi4/m/it/10 read.t able[][][]\T1/ptm/m/n/10 ; [2185] [2186] [2187] [2188] [2189] [2190] [2191] [2192] [2193] Underfull \hbox (badness 2134) in paragraph at lines 10925--10930 [][][]\T1/zi4/m/it/10 scan[][][]\T1/ptm/m/n/10 , [][]\T1/zi4/m/it/10 type.conve rt[][][]\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/ptm/m/n/10 i dth \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 ; [2194] Underfull \hbox (badness 10000) in paragraph at lines 10981--10986 []\T1/ptm/m/n/10 The `hive' con-tain-ing the key. 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Transcript written on fullrefman.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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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 639--642 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 639--642 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 639--642 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 666--671 @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 1534--1537 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1534--1537 @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 3137--3151 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3288--3296 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [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, 356697 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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 639--642 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 639--642 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 639--642 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 666--671 @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 1534--1537 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1534--1537 @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 3137--3151 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3288--3296 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [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, 373151 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-FAQ.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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 639--642 []@textrm Robert Gen-tle-man (2008), ``R Pro-gram-ming for Bioin-for-mat-ics'' . Underfull \hbox (badness 7379) in paragraph at lines 639--642 @textrm Chap-man & Hall/CRC, Boca Ra-ton, FL, ISBN 978-1-420-06367-7, Underfull \hbox (badness 10000) in paragraph at lines 639--642 [][]@texttt https:// master. bioconductor. org/ help/ publications/ book s/ [7] Underfull \hbox (badness 10000) in paragraph at lines 666--671 @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 1534--1537 []@textrm See also [][]@texttt https:// en. wikipedia. org/ wiki/ R_progra mming_language# Underfull \hbox (badness 10000) in paragraph at lines 1534--1537 @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 3137--3151 @textrm and @texttt error.bars.by()[] @textrm func-tions in the [][]@textbf psy ch @textrm (@texttt https:// CRAN. R-project. org/ [40] [41] Underfull \hbox (badness 10000) in paragraph at lines 3288--3296 @texttt download.file()[] @textrm func-tion), a down-load method is cho-sen bas ed on the [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, 373150 bytes). Transcript written on R-FAQ.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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/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] [17] Chapter 4 [18] [19] [20] Underfull \hbox (badness 10000) in paragraph at lines 1731--1741 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [21] Chapter 6 [22] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1877--1877 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [23] [24] Underfull \hbox (badness 6842) in paragraph at lines 2105--2111 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Overfull \hbox (37.93651pt too wide) in paragraph at lines 2112--2112 []@texttt Sys.setenv(PATH=paste("C:\\rtools40\\usr\\bin", Sys.getenv("PATH"), sep=";"))[] [25] [26] [27] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2325--2325 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [28] [29] [30] [31] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2636--2636 []@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 2656--2656 []@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 2657--2657 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [32] [33] [34] Chapter 8 [35] Chapter 9 [36] [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3296--3296 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3585--3585 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.265.b01-1.fc32.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] Appendix B [53] [54] [55] [56] [57] [58] Appendix C [59] [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4875--4875 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [63] [64] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5059--5059 []@texttt curl -OL https://mac.r-project.org/libs-4/pcre2-10.34-darwin.17-x86_ 64.tar.gz[] Overfull \hbox (42.37166pt too wide) in paragraph at lines 5061--5061 []@texttt curl -OL https://mac.r-project.org/libs-4/xz-5.2.4-darwin.17-x86_64. tar.gz[] [65] Overfull \hbox (66.67995pt too wide) in paragraph at lines 5143--5143 []@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 5160--5160 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] [66] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5193--5194 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [67] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5259--5259 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] [68] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5507--5511 []@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 5512--5517 []@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 5528--5528 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-11.jdk/Contents /Home[] Underfull \hbox (badness 10000) in paragraph at lines 5537--5546 @texttt downloads/ zulu-community/ ? os=macos& architecture=arm-64-bit& pa ckage=jdk[][][] @textrm and [71] [72] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5662--5662 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (36.62297pt too wide) in paragraph at lines 5680--5680 []@texttt PKG_LIBS = /usr/local/clang/lib/libc++.a /usr/local/clang/lib/libc++ abi.a[] Underfull \hbox (badness 6842) in paragraph at lines 5682--5688 @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 5682--5688 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and [73] Overfull \hbox (43.6852pt too wide) in paragraph at lines 5715--5715 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] Underfull \hbox (badness 10000) in paragraph at lines 5734--5748 @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 5772--5772 []@texttt curl -OL https://mac.r-project.org/libs-arm64/jpeg-9d-darwin.20-arm6 4.tar.gz[] [74] [75] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5944--5944 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [76] Underfull \hbox (badness 10000) in paragraph at lines 6032--6038 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 6040--6040 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6047--6047 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [77] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [78] (Function and variable index) [79] [80] No file R-admin.vrs. (Concept index) [81] No file R-admin.cps. (Environment variable index) [82] No file R-admin.ens. [83] ) (see the transcript file for additional information) Output written on R-admin.pdf (86 pages, 484473 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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] [17] Chapter 4 [18] [19] [20] Underfull \hbox (badness 10000) in paragraph at lines 1731--1741 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [21] Chapter 6 [22] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1877--1877 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [23] [24] Underfull \hbox (badness 6842) in paragraph at lines 2105--2111 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Overfull \hbox (37.93651pt too wide) in paragraph at lines 2112--2112 []@texttt Sys.setenv(PATH=paste("C:\\rtools40\\usr\\bin", Sys.getenv("PATH"), sep=";"))[] [25] [26] [27] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2325--2325 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [28] [29] [30] [31] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2636--2636 []@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 2656--2656 []@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 2657--2657 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [32] [33] [34] Chapter 8 [35] Chapter 9 [36] [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3296--3296 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3585--3585 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.265.b01-1.fc32.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] Appendix B [53] [54] [55] [56] [57] [58] Appendix C [59] [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4875--4875 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [63] [64] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5059--5059 []@texttt curl -OL https://mac.r-project.org/libs-4/pcre2-10.34-darwin.17-x86_ 64.tar.gz[] Overfull \hbox (42.37166pt too wide) in paragraph at lines 5061--5061 []@texttt curl -OL https://mac.r-project.org/libs-4/xz-5.2.4-darwin.17-x86_64. tar.gz[] [65] Overfull \hbox (66.67995pt too wide) in paragraph at lines 5143--5143 []@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 5160--5160 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] [66] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5193--5194 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [67] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5259--5259 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] [68] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5507--5511 []@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 5512--5517 []@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 5528--5528 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-11.jdk/Contents /Home[] Underfull \hbox (badness 10000) in paragraph at lines 5537--5546 @texttt downloads/ zulu-community/ ? os=macos& architecture=arm-64-bit& pa ckage=jdk[][][] @textrm and [71] [72] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5662--5662 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (36.62297pt too wide) in paragraph at lines 5680--5680 []@texttt PKG_LIBS = /usr/local/clang/lib/libc++.a /usr/local/clang/lib/libc++ abi.a[] Underfull \hbox (badness 6842) in paragraph at lines 5682--5688 @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 5682--5688 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and [73] Overfull \hbox (43.6852pt too wide) in paragraph at lines 5715--5715 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] Underfull \hbox (badness 10000) in paragraph at lines 5734--5748 @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 5772--5772 []@texttt curl -OL https://mac.r-project.org/libs-arm64/jpeg-9d-darwin.20-arm6 4.tar.gz[] [74] [75] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5944--5944 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [76] Underfull \hbox (badness 10000) in paragraph at lines 6032--6038 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 6040--6040 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6047--6047 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [77] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [78] (Function and variable index) [79] [80] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.vrs) (Concept index) [81] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.cps) (Environment variable index) [82] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.ens) [83] ) (see the transcript file for additional information) Output written on R-admin.pdf (88 pages, 528804 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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] [17] Chapter 4 [18] [19] [20] Underfull \hbox (badness 10000) in paragraph at lines 1731--1741 @texttt org.R-project.R.fw.pkg[]@textrm , @texttt org.R-project.R.GUI.pkg[]@tex trm , @texttt org.r-project.x86_ Chapter 5 [21] Chapter 6 [22] Overfull \hbox (14.94176pt too wide) in paragraph at lines 1877--1877 []@texttt [1] "datasets" "utils" "grDevices" "graphics" "stats" "met hods"[] [23] [24] Underfull \hbox (badness 6842) in paragraph at lines 2105--2111 []@texttt R CMD INSTALL[] @textrm works in Win-dows to in-stall source pack-age s. No ad-di- Overfull \hbox (37.93651pt too wide) in paragraph at lines 2112--2112 []@texttt Sys.setenv(PATH=paste("C:\\rtools40\\usr\\bin", Sys.getenv("PATH"), sep=";"))[] [25] [26] [27] Overfull \hbox (78.17732pt too wide) in paragraph at lines 2325--2325 []@texttt ./configure CC="clang -arch arm64" CFLAGS=-O2 CXX="clang++ -arch arm 64" CXXFLAGS=-O2[] [28] [29] [30] [31] Overfull \hbox (20.69044pt too wide) in paragraph at lines 2636--2636 []@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 2656--2656 []@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 2657--2657 []@texttt .../bin/x64/Rcmd check -l @textttsl lib-dir @texttt --extra-arch --i nstall=check:@textttsl pkg@texttt .log @textttsl pkg[] Chapter 7 [32] [33] [34] Chapter 8 [35] Chapter 9 [36] [37] [38] [39] Appendix A [40] [41] Overfull \hbox (49.43388pt too wide) in paragraph at lines 3296--3296 []@texttt ./configure --enable-utf --enable-unicode-properties --enable-jit -- disable-cpp[] [42] [43] [44] [45] Overfull \hbox (14.94176pt too wide) in paragraph at lines 3585--3585 []@texttt JAVA_HOME=/usr/lib/jvm/java-1.8.0-openjdk-1.8.0.265.b01-1.fc32.x86_6 4/jre[] [46] [47] [48] [49] [50] [51] [52] Appendix B [53] [54] [55] [56] [57] [58] Appendix C [59] [60] [61] [62] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4875--4875 []@texttt -Werror=format-security -Wp,-D_FORTIFY_SOURCE=2 -Wp,-D_GLIBCXX_ASSER TIONS[] [63] [64] Overfull \hbox (59.61772pt too wide) in paragraph at lines 5059--5059 []@texttt curl -OL https://mac.r-project.org/libs-4/pcre2-10.34-darwin.17-x86_ 64.tar.gz[] Overfull \hbox (42.37166pt too wide) in paragraph at lines 5061--5061 []@texttt curl -OL https://mac.r-project.org/libs-4/xz-5.2.4-darwin.17-x86_64. tar.gz[] [65] Overfull \hbox (66.67995pt too wide) in paragraph at lines 5143--5143 []@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 5160--5160 []@texttt curl -OL https://mac.r-project.org/tools/subversion-1.14.0-darwin15. 6.tar.gz[] [66] Overfull \hbox (38.79282pt too wide) in paragraph at lines 5193--5194 [][][]@smallrm See [][]@smalltt https:// developer. apple. com/ documentati on/ xcode/ notarizing_macos_software_before_distribution[][][]@smallrm .| [67] Overfull \hbox (106.92076pt too wide) in paragraph at lines 5259--5259 []@texttt export PKG_CONFIG_PATH=/opt/X11/lib/pkgconfig:/usr/local/lib/pkgconf ig:/usr/lib/pkgconfig[] [68] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5507--5511 []@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 5512--5517 []@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 5528--5528 []@texttt JAVA_HOME=/Library/Java/JavaVirtualMachines/termurin-11.jdk/Contents /Home[] Underfull \hbox (badness 10000) in paragraph at lines 5537--5546 @texttt downloads/ zulu-community/ ? os=macos& architecture=arm-64-bit& pa ckage=jdk[][][] @textrm and [71] [72] Overfull \hbox (25.1256pt too wide) in paragraph at lines 5662--5662 []@texttt install_name_tool -change /usr/local/gfortran/lib/libgfortran.5.dyli b \[] Overfull \hbox (36.62297pt too wide) in paragraph at lines 5680--5680 []@texttt PKG_LIBS = /usr/local/clang/lib/libc++.a /usr/local/clang/lib/libc++ abi.a[] Underfull \hbox (badness 6842) in paragraph at lines 5682--5688 @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 5682--5688 @textrm tran run-time li-braries @texttt /usr/local/gfortran/lib/libgfortran.a [] @textrm and [73] Overfull \hbox (43.6852pt too wide) in paragraph at lines 5715--5715 []@texttt FC="/usr/local/gfortran/bin/gfortran -mtune=native -mmacosx-version- min=10.13"[] Underfull \hbox (badness 10000) in paragraph at lines 5734--5748 @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 5772--5772 []@texttt curl -OL https://mac.r-project.org/libs-arm64/jpeg-9d-darwin.20-arm6 4.tar.gz[] [74] [75] Overfull \hbox (32.18782pt too wide) in paragraph at lines 5944--5944 []@texttt R_LD_LIBRARY_PATH="/opt/developerstudio12.6/lib:/usr/local/lib:/opt/ csw/lib"[] [76] Underfull \hbox (badness 10000) in paragraph at lines 6032--6038 @texttt LDFLAGS=-L/usr/local/lib/amd64[] @textrm or @texttt LDFLAGS=-L/usr/loca l/lib/sparcv9[] @textrm as Overfull \hbox (141.41289pt too wide) in paragraph at lines 6040--6040 []@texttt PKG_CONFIG_PATH= /usr/local/lib/amd64/pkgconfig:/opt/csw/lib/64/pkgc onfig:/usr/lib/64/pkgconfig[] Overfull \hbox (26.43913pt too wide) in paragraph at lines 6047--6047 []@texttt JAVA_CPPFLAGS="-I${JAVA_HOME}/../include -I${JAVA_HOME}/../include/s olaris"[] [77] Underfull \hbox (badness 10000) in paragraph at lines 6097--6101 []@textrm Note that paths such as @texttt /opt/csw/lib[]@textrm , @texttt /usr/ local/lib/amd64[] @textrm and [78] (Function and variable index) [79] [80] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.vrs) (Concept index) [81] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.cps) (Environment variable index) [82] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-admin.ens) [83] ) (see the transcript file for additional information) Output written on R-admin.pdf (88 pages, 528804 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/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, 269299 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc [-1]) [-2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc) (Acknowledgements) (/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309049 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc [-1]) [-2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.toc) (Acknowledgements) (/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-data.vrs [34]) (Concept index) [35] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-data.cps) [36] [37] ) (see the transcript file for additional information) Output written on R-data.pdf (41 pages, 309052 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/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 494--497 []@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 1514--1514 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1515--1515 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1516--1516 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] [20] Underfull \hbox (badness 10000) in paragraph at lines 1547--1554 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [21] [22] [23] [24] [25] [26] [27] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2126--2126 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 2282--2284 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [30] [31] [32] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2512--2512 []@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 2514--2514 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [33] [34] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2652--2652 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [35] [36] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2827--2827 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2850--2856 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [37] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2932--2934 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4272--4272 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [55] [56] [57] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4496--4496 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4515--4515 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [58] [59] [60] [61] [62] [63] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4933--4933 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4935--4935 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4936--4936 [] @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 4951--4951 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [64] [65] [66] [67] [68] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5301--5301 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5461--5464 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [71] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5554--5554 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [72] [73] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5682--5682 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5730--5730 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5773--5774 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6014--6014 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [78] [79] [80] Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Underfull \hbox (badness 10000) in paragraph at lines 7278--7285 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [95] [96] [97] [98] [99] [100] Chapter 3 [101] [102] [103] [104] [105] [106] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8205--8205 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [107] [108] [109] Chapter 4 [110] [111] [112] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8577--8577 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [113] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8618--8618 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [114] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8722--8722 []@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 8752--8761 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [115] [116] [117] [118] Underfull \hbox (badness 10000) in paragraph at lines 9017--9029 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9033--9034 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [119] [120] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9171--9171 []@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 9204--9206 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [121] Underfull \hbox (badness 10000) in paragraph at lines 9292--9296 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [122] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9327--9331 []@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 9350--9350 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9395--9395 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9398--9398 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9477--9477 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [125] [126] [127] Underfull \hbox (badness 10000) in paragraph at lines 9716--9718 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [128] Overfull \hbox (124.16682pt too wide) in paragraph at lines 9773--9773 []@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 9792--9792 []@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 9803--9803 []@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 9823--9823 [] @tex ttt 1[] [129] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9832--9832 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9833--9833 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10617--10617 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10680--10680 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [141] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11257--11257 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12090--12090 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [160] Underfull \hbox (badness 10000) in paragraph at lines 12151--12153 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [161] [162] [163] [164] [165] [166] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12685--12685 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12808--12808 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12813--12813 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12868--12868 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12880--12880 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [171] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12979--12979 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [172] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13117--13117 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [174] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13198--13198 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [175] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13296--13296 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [176] [177] [178] [179] [180] [181] [182] [183] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14036--14036 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [184] [185] [186] [187] [188] [189] [190] [191] [192] Underfull \hbox (badness 10000) in paragraph at lines 14737--14741 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [193] Warning: unbalanced parentheses in @def... [194] [195] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14958--14958 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [196] [197] [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 15268--15270 @textrm interface to in-ter-nal method of [200] Chapter 7 [201] [202] Chapter 8 [203] [204] [205] Overfull \hbox (43.6852pt too wide) in paragraph at lines 15710--15710 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [206] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15753--15753 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 15768--15768 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [207] [208] [209] [210] Underfull \hbox (badness 10000) in paragraph at lines 16011--16018 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [211] [212] [213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 16394--16398 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [216] No file R-exts.vrs. (Concept index) [217] No file R-exts.cps. [218] ) (see the transcript file for additional information) Output written on R-exts.pdf (221 pages, 947362 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc) (Acknowledgements) (/build/r-base-PT7Nxy/r-base-4.1.2/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 494--497 []@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 1514--1514 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1515--1515 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1516--1516 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] Underfull \hbox (badness 10000) in paragraph at lines 1547--1554 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [20] [21] [22] [23] [24] [25] [26] [27] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2126--2126 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 2282--2284 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [30] [31] [32] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2512--2512 []@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 2514--2514 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [33] [34] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2652--2652 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [35] [36] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2827--2827 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2850--2856 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [37] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2932--2934 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4272--4272 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [55] [56] [57] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4496--4496 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4515--4515 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [58] [59] [60] [61] [62] [63] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4933--4933 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4935--4935 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4936--4936 [] @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 4951--4951 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [64] [65] [66] [67] [68] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5301--5301 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5461--5464 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [71] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5554--5554 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [72] [73] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5682--5682 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5730--5730 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5773--5774 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6014--6014 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [78] [79] [80] Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Underfull \hbox (badness 10000) in paragraph at lines 7278--7285 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [95] [96] [97] [98] [99] [100] Chapter 3 [101] [102] [103] [104] [105] [106] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8205--8205 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [107] [108] [109] Chapter 4 [110] [111] [112] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8577--8577 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [113] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8618--8618 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [114] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8722--8722 []@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 8752--8761 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [115] [116] [117] [118] Underfull \hbox (badness 10000) in paragraph at lines 9017--9029 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9033--9034 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [119] [120] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9171--9171 []@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 9204--9206 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [121] Underfull \hbox (badness 10000) in paragraph at lines 9292--9296 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [122] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9327--9331 []@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 9350--9350 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9395--9395 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9398--9398 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9477--9477 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [125] [126] [127] Underfull \hbox (badness 10000) in paragraph at lines 9716--9718 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [128] Overfull \hbox (124.16682pt too wide) in paragraph at lines 9773--9773 []@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 9792--9792 []@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 9803--9803 []@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 9823--9823 [] @tex ttt 1[] [129] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9832--9832 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9833--9833 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10617--10617 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10680--10680 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [141] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11257--11257 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12090--12090 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [160] Underfull \hbox (badness 10000) in paragraph at lines 12151--12153 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [161] [162] [163] [164] [165] [166] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12685--12685 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12808--12808 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12813--12813 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12868--12868 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12880--12880 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [171] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12979--12979 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [172] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13117--13117 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [174] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13198--13198 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [175] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13296--13296 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [176] [177] [178] [179] [180] [181] [182] [183] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14036--14036 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [184] [185] [186] [187] [188] [189] [190] [191] [192] Underfull \hbox (badness 10000) in paragraph at lines 14737--14741 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [193] Warning: unbalanced parentheses in @def... [194] [195] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14958--14958 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [196] [197] [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 15268--15270 @textrm interface to in-ter-nal method of [200] Chapter 7 [201] [202] Chapter 8 [203] [204] [205] Overfull \hbox (43.6852pt too wide) in paragraph at lines 15710--15710 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [206] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15753--15753 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 15768--15768 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [207] [208] [209] [210] Underfull \hbox (badness 10000) in paragraph at lines 16011--16018 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [211] [212] [213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 16394--16398 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [216] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.vrs [217] [218] [219]) (Concept index) [220] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.cps [221]) [222] ) (see the transcript file for additional information) Output written on R-exts.pdf (229 pages, 1012178 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc [-1] [-2] [-3] [-4]) [-5] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.toc) (Acknowledgements) (/build/r-base-PT7Nxy/r-base-4.1.2/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 494--497 []@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 1514--1514 [] @texttt "--no-libs", "--no-help", "--no-demo", "--no-exec" , "--no-test-load")[] Overfull \hbox (72.42863pt too wide) in paragraph at lines 1515--1515 [] @texttt install.packages(pkg, lib, INSTALL_opts = opts, repos = NULL , quiet = TRUE)[] Overfull \hbox (20.69044pt too wide) in paragraph at lines 1516--1516 [] @texttt res[z] <- file.size(file.path(lib, pkg_name, "data", "Rdata. rdb"))[] Underfull \hbox (badness 10000) in paragraph at lines 1547--1554 @texttt org/ package=amap[]@textrm )[][]), Python or Tcl ([][]@textbf Simile @ textrm (@texttt https:// CRAN. R-project. org/ [20] [21] [22] [23] [24] [25] [26] [27] Overfull \hbox (14.94176pt too wide) in paragraph at lines 2126--2126 []@texttt SLAMC_FFLAGS=$(R_XTRA_FFLAGS) $(FPICFLAGS) $(SHLIB_FFLAGS) $(SAFE_FF LAGS)[] [28] [29] Underfull \hbox (badness 10000) in paragraph at lines 2282--2284 [][][][][]@smalltt https:// www. openmp. org/ [][][]@smallrm , [][]@smalltt https:// en. wikipedia. org/ wiki/ OpenMP[][][]@smallrm , [][]@smalltt ht tps:// hpc. llnl. gov/ [30] [31] [32] Overfull \hbox (67.78206pt too wide) in paragraph at lines 2512--2512 []@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 2514--2514 []@smalltt OBJECTS = siena07utilities.o siena07internals.o siena07setup.o sien a07models.o $(SOURCES:.cpp=.o)[] [33] [34] Overfull \hbox (16.92342pt too wide) in paragraph at lines 2652--2652 []@smalltt dnl for 64-bit ODBC need SQL[U]LEN, and it is unclear where they ar e defined.[] [35] [36] Overfull \hbox (60.93126pt too wide) in paragraph at lines 2827--2827 [] @texttt CXX="$(CXX11) $(CXX11STD)" CXXFLAGS="$(CXX11FLAGS) $(CXX 11PICFLAGS)")[] Underfull \hbox (badness 7221) in paragraph at lines 2850--2856 [][][]@smallrm See [][]@smalltt https:// isocpp. org/ std/ standing-documen ts/ sd-6-sg10-feature-test-recommendations[][][] @smallrm or [37] Overfull \hbox (2.98494pt too wide) in paragraph at lines 2932--2934 [][][]@smallrm On sys-tems which use sub-architectures, architecture-specific v er-sions such as @smalltt ~/.R/check.Renviron.i386[] [38] [39] [40] [41] [42] [43] [44] [45] [46] [47] [48] [49] [50] [51] [52] [53] [54] Overfull \hbox (20.69044pt too wide) in paragraph at lines 4272--4272 []@texttt importFrom("stats", approx, optim, pchisq, predict, qchisq, qnorm, s pline)[] [55] [56] [57] Overfull \hbox (81.29893pt too wide) in paragraph at lines 4496--4496 [] @texttt CXX="$(CXX)" CXXFLAGS="$(CXXFLAGS) $(CXXPICFLAGS) $(C_VISIB ILITY)" \[] Overfull \hbox (59.61772pt too wide) in paragraph at lines 4515--4515 []@texttt CXXFLAGS = `"${RBIN}" CMD config CXXFLAGS` `"${RBIN}" CMD config CXX PICFLAGS`[] [58] [59] [60] [61] [62] [63] Overfull \hbox (53.86903pt too wide) in paragraph at lines 4933--4933 []@texttt jv <- .jcall("java/lang/System", "S", "getProperty", "java.runtime.v ersion")[] Overfull \hbox (48.12035pt too wide) in paragraph at lines 4935--4935 [] @texttt jvn <- as.numeric(paste0(strsplit(jv, "[.]")[[1L]][1:2], collapse = "."))[] Overfull \hbox (65.36641pt too wide) in paragraph at lines 4936--4936 [] @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 4951--4951 []@texttt java.lang.UnsupportedClassVersionError: ... Unsupported major.minor version 52.0[] [64] [65] [66] [67] [68] Overfull \hbox (14.94176pt too wide) in paragraph at lines 5301--5301 []@texttt "latin1=en_US:latin2=pl_PL:UTF-8=en_US.UTF-8:latin9=fr_FR.iso885915@ euro"[] [69] [70] Underfull \hbox (badness 10000) in paragraph at lines 5461--5464 @texttt gcc/ C-Extensions. html[][][] @textrm and [][]@texttt https:// gcc. gnu. org/ onlinedocs/ gcc/ [71] Overfull \hbox (19.3769pt too wide) in paragraph at lines 5554--5554 []@texttt abs acos atan bind calloc ceil div exp fabs floor fmod free log mall oc[] [72] [73] Overfull \hbox (53.86903pt too wide) in paragraph at lines 5682--5682 []@texttt 'register' storage class specifier is deprecated and incompatible wi th C++17[] Overfull \hbox (13.62822pt too wide) in paragraph at lines 5730--5730 []@texttt #if defined (__unix__) || (defined (__APPLE__) && defined (__MACH__) )[] [74] Underfull \hbox (badness 10000) in paragraph at lines 5773--5774 [][][]@smallrm See [][]@smalltt https:// prereleases. llvm. org/ 11. 0. 0 / rc2/ tools/ clang/ docs/ ReleaseNotes. html# [75] [76] [77] Overfull \hbox (13.62822pt too wide) in paragraph at lines 6014--6014 []@texttt #define dngettext(pkg, String, StringP, N) (N > 1 ? StringP : String )[] [78] [79] [80] Chapter 2 [81] [82] [83] [84] [85] [86] [87] [88] [89] [90] [91] [92] [93] [94] Underfull \hbox (badness 10000) in paragraph at lines 7278--7285 []@textrm The two com-monly used sim-ple forms are @texttt \figure{@textttsl fi lename@texttt }[] @textrm and [95] [96] [97] [98] [99] [100] Chapter 3 [101] [102] [103] [104] [105] [106] Overfull \hbox (20.69044pt too wide) in paragraph at lines 8205--8205 [] @texttt as.integer(runif(N, 1, 12)), as.integer(runif(N, 1, 28)))[] [107] [108] [109] Chapter 4 [110] [111] [112] Overfull \hbox (14.94176pt too wide) in paragraph at lines 8577--8577 []@texttt evaluation nested too deeply: infinite recursion / options(expressio ns=)?[] [113] Overfull \hbox (25.25755pt too wide) in paragraph at lines 8618--8618 []@smalltt Message: Error: no valid set of coefficients has been found: pleas e supply starting values[] [114] Overfull \hbox (20.53261pt too wide) in paragraph at lines 8722--8722 []@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 8752--8761 []@texttt debug[] @textrm can be used for hid-den func-tions and S3 meth-ods by e.g. @texttt debug(stats:::predict.Arima)[]@textrm . [115] [116] [117] [118] Underfull \hbox (badness 10000) in paragraph at lines 9017--9029 @texttt controlling-code-generation[][][]@textrm , [][]@texttt https:// clang. llvm. org/ docs/ AddressSanitizer. Overfull \hbox (48.90796pt too wide) in paragraph at lines 9033--9034 [][][]@smallrm see [][]@smalltt https:// llvm. org/ devmtg/ 2014-04/ PDFs/ LightningTalks/ EuroLLVM%202014%20--%20container%20overflow. [119] [120] Overfull \hbox (78.17732pt too wide) in paragraph at lines 9171--9171 []@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 9204--9206 []@textrm This san-i-tizer can be com-bined with the Ad-dress San-i-tizer by @t exttt -fsanitize=undefined,address[] [121] Underfull \hbox (badness 10000) in paragraph at lines 9292--9296 [][]@texttt https:// blog. llvm. org/ 2011/ 05/ what-every-c-programmer-s hould-know. html[][][] [122] Overfull \hbox (2.03816pt too wide) in paragraph at lines 9327--9331 []@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 9350--9350 []@texttt Fortran runtime error: Index '1' of dimension 1 of array 'x' above u pper bound of 0[] [123] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9395--9395 [] @texttt 2: possibleExtends(class(sloti), classi, ClassDef2 = getClassDef(cl assi,[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9398--9398 [] @texttt 4: stopifnot(validObject(cu <- as(tu, "dtCMatrix")), validObject(t( cu)),[] [124] Overfull \hbox (26.43913pt too wide) in paragraph at lines 9477--9477 []@texttt #5 0xb7d6c0a5 in do_random2 (call=0x94bf7d4, op=0x92580e8, args=0x9 698f98,[] [125] [126] [127] Underfull \hbox (badness 10000) in paragraph at lines 9716--9718 [][][]@smallrm See [][]@smalltt https:// svn. r-project. org/ R-dev-web/ t runk/ CRAN/ QA/ Simon/ R-build/ fixpathR[][][]@smallrm : [128] Overfull \hbox (124.16682pt too wide) in paragraph at lines 9773--9773 []@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 9792--9792 []@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 9803--9803 []@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 9823--9823 [] @tex ttt 1[] [129] Overfull \hbox (14.94176pt too wide) in paragraph at lines 9832--9832 [] @tex ttt 1[] Overfull \hbox (43.6852pt too wide) in paragraph at lines 9833--9833 []@texttt Warning: Type mismatch in argument 'jpvt' at (1); passed REAL(8) to INTEGER(4)[] Chapter 5 [130] [131] [132] [133] [134] [135] [136] [137] [138] [139] [140] Overfull \hbox (30.87428pt too wide) in paragraph at lines 10617--10617 [] @texttt double *w, int *iper, double *span, double *al pha,[] Overfull \hbox (51.66371pt too wide) in paragraph at lines 10680--10680 []@smalltt y[accept] <- .Call("spline_value", knots, coeff, ord, x[accept], de riv, PACKAGE = "splines")[] [141] [142] [143] [144] [145] [146] [147] [148] Overfull \hbox (37.93651pt too wide) in paragraph at lines 11257--11257 []@texttt PKG_LIBS=-L"$(PKGB_PATH)$(R_ARCH)" -Wl,-rpath,"$(PKGB_PATH)$(R_ARCH) " -lpackB[] [149] [150] [151] [152] [153] [154] [155] [156] [157] [158] [159] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12090--12090 [] @texttt if(ign == NA_LOGICAL) error("'ignore_quotes' must be TRUE or FAL SE");[] [160] Underfull \hbox (badness 10000) in paragraph at lines 12151--12153 []@textrm Functions @texttt any_duplicated[] @textrm and @texttt any_duplicated 3[] @textrm are fast ver-sions of R's [161] [162] [163] [164] [165] [166] [167] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12685--12685 [] @texttt // a version with (too) much PROTECT()ion .. "better safe than s orry"[] [168] [169] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12808--12808 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12813--12813 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12868--12868 [] @texttt gradient = PROTECT(allocMatrix(REALSXP, LENGTH(ans), LENGTH(thet a)));[] [170] Overfull \hbox (14.94176pt too wide) in paragraph at lines 12880--12880 [] @texttt for(i = 0, start = 0; i < LENGTH(theta); i++, start += LENGTH(an s)) {[] [171] Overfull \hbox (26.43913pt too wide) in paragraph at lines 12979--12979 [] @texttt cmdexpr = PROTECT(R_ParseVector(cmdSexp, -1, &status, R_NilV alue));[] [172] [173] Overfull \hbox (14.94176pt too wide) in paragraph at lines 13117--13117 []@texttt void R_RegisterCFinalizerEx(SEXP s, R_CFinalizer_t fun, Rboolean one xit);[] [174] Overfull \hbox (43.6852pt too wide) in paragraph at lines 13198--13198 [] @texttt ptr = R_MakeExternalPtr(thisHandle, install("RODBC_channel"), R_ NilValue);[] [175] Overfull \hbox (72.42863pt too wide) in paragraph at lines 13296--13296 []@texttt typedef enum {CE_NATIVE, CE_UTF8, CE_LATIN1, CE_BYTES, CE_SYMBOL, CE _ANY} cetype_t;[] Chapter 6 [176] [177] [178] [179] [180] [181] [182] [183] Overfull \hbox (20.69044pt too wide) in paragraph at lines 14036--14036 [] @texttt call cmsg(msg//c_null_char) ! need to concatenate a nul term inator[] Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 []@textrm Passing a variable-length string from C to For-tran is trick-ier, but Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 [][]@texttt https:// software. intel. com/ content/ www/ us/ en/ develo p/ documentation/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt fortran-compiler-oneapi-dev-guide-and-reference/ top/ compiler-refere nce/ Underfull \hbox (badness 10000) in paragraph at lines 14048--14053 @texttt mixed-language-programming/ standard-tools-for-interoperability/ bind . html[][][] [184] [185] [186] [187] [188] [189] [190] [191] [192] Underfull \hbox (badness 10000) in paragraph at lines 14737--14741 []@texttt R_orderVector()[] @textrm cor-re-sponds to R's @texttt order(..., na .last, decreasing)[]@textrm . [193] Warning: unbalanced parentheses in @def... [194] [195] Overfull \hbox (26.43913pt too wide) in paragraph at lines 14958--14958 [] @texttt void (*clean)(void *data, Rboolean jump), void *cdata,[] [196] [197] [198] [199] Underfull \hbox (badness 10000) in paragraph at lines 15268--15270 @textrm interface to in-ter-nal method of [200] Chapter 7 [201] [202] Chapter 8 [203] [204] [205] Overfull \hbox (43.6852pt too wide) in paragraph at lines 15710--15710 []@texttt ## replace $(LIBR) $(LIBS) by $(STATIC_LIBR) if R was build with a s tatic libR[] [206] Overfull \hbox (20.69044pt too wide) in paragraph at lines 15753--15753 []@texttt extern int (*ptr_R_ReadConsole)(const char *, unsigned char *, int, int);[] Overfull \hbox (55.18257pt too wide) in paragraph at lines 15768--15768 []@texttt extern int (*ptr_R_EditFiles)(int, const char **, const char **, co nst char *);[] [207] [208] [209] [210] Underfull \hbox (badness 10000) in paragraph at lines 16011--16018 @texttt modules/internet/nanoftp.c[]@textrm , @texttt src/modules/internet/nan ohttp.c[] @textrm and @texttt src/ [211] [212] [213] [214] [215] Underfull \hbox (badness 10000) in paragraph at lines 16394--16398 []@textrm If the de-sired ar-chi-tec-ture is known, look in @texttt Software\R -core\R32[] @textrm or (Function and variable index) [216] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.vrs [217] [218] [219]) (Concept index) [220] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-exts.cps [221]) [222] ) (see the transcript file for additional information) Output written on R-exts.pdf (229 pages, 1012158 bytes). Transcript written on R-exts.log. TEXINPUTS=".:$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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/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 4847--4849 @texttt logit[]@textrm , @texttt probit[]@textrm , @texttt cloglog[]@textrm , @texttt identity[]@textrm , [61] [62] [63] [64] [65] [66] Underfull \hbox (badness 10000) in paragraph at lines 5261--5271 [][]@textbf Mixed mod-els. @textrm The rec-om-mended [][]@textbf nlme @textrm (@texttt https:// CRAN. R-project. org/ Chapter 12 [67] [68] [69] [70] [71] Overfull \hbox (26.43913pt too wide) in paragraph at lines 5741--5741 []@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 6447--6452 []@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 6648--6653 []@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, 576965 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc) (Preface) (/build/r-base-PT7Nxy/r-base-4.1.2/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 4847--4849 @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 5261--5271 [][]@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 5741--5741 []@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 6447--6452 []@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 6648--6653 []@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-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/r-base-PT7Nxy/r-base-4.1.2/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, 633514 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc [-1] [-2] [-3]) [-4] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.toc) (Preface) (/build/r-base-PT7Nxy/r-base-4.1.2/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 4847--4849 @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 5261--5271 [][]@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 5741--5741 []@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 6447--6452 []@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 6648--6653 []@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-PT7Nxy/r-base-4.1.2/doc/manual/R-intro.vrs [102] [103]) Appendix E [104] (/build/r-base-PT7Nxy/r-base-4.1.2/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, 633584 bytes). Transcript written on R-intro.log. TEXINPUTS=".:$TEXINPUTS" LC_COLLATE=C /usr/bin/texi2dvi --texinfo="@set UseExternalXrefs " --pdf R-ints.texi @setfilename R-ints.info This is pdfTeX, Version 3.141592653-2.6-1.40.22 (TeX Live 2022/dev/Debian) (preloaded format=pdfetex) restricted \write18 enabled. entering extended mode (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.t2d/pdf/xtr/R-ints.texi (/usr/share/texmf/tex/texinfo/texinfo.tex Loading texinfo [version 2021-04-25.21]: pdf, fonts, glyphs, page headings, tables, conditionals, indexing, sectioning, toc, environments, defuns, macros, cross references, insertions, (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/epsf.tex This is `epsf.tex' v2.7.4 <14 February 2011> ) localization, formatting, and turning on texinfo input format.) Writing index file R-ints.vr (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] [-1] Chapter 1 Writing index file R-ints.cp [1] [2] [3] [4] [5] [6] [7] [8] [9] [10] [11] [12] [13] [14] [15] [16] [17] [18] Overfull \hbox (49.43388pt too wide) in paragraph at lines 1468--1468 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1469--1469 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1470--1470 [] @texttt length(meth.Ops <- nM$`.__T__Ops:base`) # 71 methods for the 'Ops' (group)generic[] Overfull \hbox (158.65895pt too wide) in paragraph at lines 1471--1471 [] @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 2004--2004 [] @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] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3705--3709 []@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 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 []@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 4072--4080 @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 4072--4080 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4436--4436 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [62] Chapter 9 [63] [64] Chapter 10 [65] Chapter 11 [66] Chapter 12 [67] [68] (Function and variable index) [69] [70] No file R-ints.vrs. (Concept index) [71] No file R-ints.cps. [72] ) (see the transcript file for additional information) Output written on R-ints.pdf (75 pages, 408504 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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 1468--1468 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1469--1469 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1470--1470 [] @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 1471--1471 [] @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 2004--2004 [] @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] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3705--3709 []@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 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 []@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 4072--4080 @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 4072--4080 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4436--4436 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [62] Chapter 9 [63] [64] Chapter 10 [65] Chapter 11 [66] Chapter 12 [67] [68] (Function and variable index) [69] [70] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.vrs [71] [72]) (Concept index) [73] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.cps) [74] ) (see the transcript file for additional information) Output written on R-ints.pdf (79 pages, 460310 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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 1468--1468 [] @texttt length(nM <- asNamespace("Matrix") ) # 941 for M atrix 1.2-6[] Overfull \hbox (78.17732pt too wide) in paragraph at lines 1469--1469 [] @texttt length(meth <- grep("^[.]__T__", names(nM), value=TRUE))# 107 gener ics with methods[] Overfull \hbox (66.67995pt too wide) in paragraph at lines 1470--1470 [] @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 1471--1471 [] @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 2004--2004 [] @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] Chapter 7 [48] Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @textrm it uses @texttt /Library/Frameworks/R.framework/R[]@textrm . This is a sym-bolic link, Underfull \hbox (badness 10000) in paragraph at lines 3654--3663 @texttt /Library/Frameworks/R.framework/Versions/Current/Resources/lib/libR.dyl ib[]@textrm , [49] Overfull \hbox (16.81319pt too wide) in paragraph at lines 3705--3709 []@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 [50] [51] [52] [53] [54] [55] Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 []@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 4072--4080 @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 4072--4080 @textrm (@texttt https:// CRAN. R-project. org/ package=codetools[]@textrm )[][] func-tions used Underfull \hbox (badness 10000) in paragraph at lines 4072--4080 @textrm to us-ing @texttt skipWith = TRUE[]@textrm , @texttt suppressPartialMa tchArgs = FALSE[] @textrm and [56] [57] [58] [59] [60] [61] Overfull \hbox (14.94176pt too wide) in paragraph at lines 4436--4436 []@texttt _R_CHECK_LENGTH_1_CONDITION_=package:_R_CHECK_PACKAGE_NAME_,abort,ve rbose[] [62] Chapter 9 [63] [64] Chapter 10 [65] Chapter 11 [66] Chapter 12 [67] [68] (Function and variable index) [69] [70] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.vrs [71] [72]) (Concept index) [73] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-ints.cps) [74] ) (see the transcript file for additional information) Output written on R-ints.pdf (79 pages, 460309 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/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, 330818 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/r-base-PT7Nxy/r-base-4.1.2/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, 380207 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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-defs.texi (/usr/share/texmf/tex/texinfo/txi-en.tex)) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/version.texi) [1{/var/lib/texmf/f onts/map/pdftex/updmap/pdftex.map}] [2] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc [-1] [-2]) [-3] (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc) (/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.toc) Chapter 1 (/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/doc/manual/R-lang.vrs [60]) (Concept Index) [61] (/build/r-base-PT7Nxy/r-base-4.1.2/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, 380203 bytes). Transcript written on R-lang.log. installing R manuals in PDF format ... make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' make prefix=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr \ infodir=/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info install-info make[1]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2' make[2]: Entering directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-FAQ.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-admin.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-data.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-exts.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-intro.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-ints.texi /usr/bin/texi2any --enable-encoding -D UseExternalXrefs -I. R-lang.texi mkdir -p -- /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info /usr/bin/install -c -m 644 "./dir" "/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info" installing R info pages ... updating '/build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir' ... you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually you need to adjust /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/dir manually make[2]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2/doc/manual' make[1]: Leaving directory '/build/r-base-PT7Nxy/r-base-4.1.2' 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-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/*.gz /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-FAQ.info.gz: 67.2% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-FAQ.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-admin.info.gz: 67.7% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-admin.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-data.info.gz: 70.7% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-data.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-1.gz: 66.3% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-1 /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-2.gz: 67.4% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-2 /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-3.gz: 79.6% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info-3 /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info.gz: 70.2% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-exts.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-intro.info.gz: 70.0% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-intro.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-ints.info.gz: 68.0% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-ints.info /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/info/R-lang.info.gz: 71.6% -- replaced with /build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/debian/r-doc-info/usr/share/info/dir \ /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-doc-info/usr/share/info/dir.old removed '/build/r-base-PT7Nxy/r-base-4.1.2/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-PT7Nxy/r-base-4.1.2/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 2308 -rw-r--r-- 1 root root 1582032 Jan 12 09:03 libRmath.a -rwxr-xr-x 1 root root 777856 Jan 12 09:03 libRmath.so drwxr-xr-x 2 root root 25 Jan 12 09:06 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-PT7Nxy/r-base-4.1.2/debian/r-mathlib/usr/include install -m 0644 debian/Rprofile.site /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/etc/R install -m 0644 debian/Renviron.site /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/etc/R (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/etc; \ cat /build/r-base-PT7Nxy/r-base-4.1.2/debian/Renviron-R_LIBS.patch | patch --verbose; \ 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 . ) Hmm... Looks like a unified diff to me... The text leading up to this was: -------------------------- |--- Renviron.orig 2003-04-04 06:52:22.000000000 -0500 |+++ Renviron 2003-04-04 06:49:05.000000000 -0500 -------------------------- patching file Renviron Using Plan A... Hunk #1 succeeded at 51 with fuzz 2 (offset 18 lines). done 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-PT7Nxy/r-base-4.1.2/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-arch *** dh_testdir -a dh_testroot -a dh_installdocs -pr-base-core doc/NEWS.* README \ debian/README.Atlas \ debian/README.mathlib dh_installdocs -pr-mathlib doc/NEWS.* README \ debian/README.mathlib dh_installdocs -pr-base-core-dbg dh_installexamples -pr-mathlib src/nmath/standalone/test.c #dh_installmenu -a # (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/doc .) (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../R/doc .) (cd /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/doc/r-base-core && ln -s ../../../lib/R/library .) install -p -m 0644 debian/r-base-core.lintian \ /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/share/lintian/overrides/r-base-core install -p -m 0644 debian/r-recommended.lintian \ /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-recommended/usr/share/lintian/overrides/r-recommended install -p -m 0644 debian/r-mathlib.lintian \ /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-mathlib/usr/share/lintian/overrides/r-mathlib dh_installchangelogs -a -k doc/NEWS dh_strip --dbg-package=r-base-core-dbg Can't stat debian/r-base: No such file or directory at /usr/bin/dh_strip line 357. dh_compress -a dh_fixperms -a dh_link -a dh_makeshlibs -a dh_installdeb -a dh_perl -a dh_shlibdeps -a -l /build/r-base-PT7Nxy/r-base-4.1.2/debian/r-base-core/usr/lib/R/lib dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtcl8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libtk8.6.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dpkg-shlibdeps: warning: can't extract name and version from library name 'libR.so' dh_gencontrol -a dpkg-gencontrol: warning: Depends field of package r-base-core: substitution variable ${perl:Depends} used, but is not defined dh_md5sums -a dh_builddeb -a dpkg-deb: building package 'r-mathlib' in '../r-mathlib_4.1.2-1_amd64.deb'. dpkg-deb: building package 'r-base-core-dbg' in '../r-base-core-dbg_4.1.2-1_amd64.deb'. dpkg-deb: building package 'r-base-core' in '../r-base-core_4.1.2-1_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../r-base_4.1.2-1_amd64.changes dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep 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-PT7Nxy /tmp/r-base-4.1.2-1zot1b6s9 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.oTxuCVvu47... I: success in 12715.6665 seconds md5: r-base-core-dbg_4.1.2-1_amd64.deb: OK md5: Value of 'md5' differs for r-base-core_4.1.2-1_amd64.deb md5: Size differs for r-base-core_4.1.2-1_amd64.deb md5: r-mathlib_4.1.2-1_amd64.deb: OK sha1: r-base-core-dbg_4.1.2-1_amd64.deb: OK sha1: Value of 'sha1' differs for r-base-core_4.1.2-1_amd64.deb sha1: Size differs for r-base-core_4.1.2-1_amd64.deb sha1: r-mathlib_4.1.2-1_amd64.deb: OK sha256: r-base-core-dbg_4.1.2-1_amd64.deb: OK sha256: Value of 'sha256' differs for r-base-core_4.1.2-1_amd64.deb sha256: Size differs for r-base-core_4.1.2-1_amd64.deb sha256: r-mathlib_4.1.2-1_amd64.deb: OK Checksums: FAIL Cannot generate diffoscope for r-base-core_4.1.2-1_amd64.deb: RetryError[]