Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/r/r-bioc-affyio/r-bioc-affyio_1.64.0-1_amd64.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/r-bioc-affyio-1.64.0-10uqa8cw7/r-bioc-affyio_1.64.0-1_amd64.buildinfo Get source package info: r-bioc-affyio=1.64.0-1 Source URL: http://snapshot.notset.fr/mr/package/r-bioc-affyio/1.64.0-1/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=autoconf=2.71-2 automake=1:1.16.5-1.1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-3.1 binutils=2.37-10 binutils-common=2.37-10 binutils-x86-64-linux-gnu=2.37-10 bsdextrautils=2.37.2-4 bsdutils=1:2.37.2-4 build-essential=12.9 bzip2=1.0.8-4 ca-certificates=20211016 coreutils=8.32-4.1 cpp=4:11.2.0-2 cpp-11=11.2.0-12 dash=0.5.11+git20210903+057cd650a4ed-3 dctrl-tools=2.24-3+b1 debconf=1.5.79 debhelper=13.5.2 debianutils=5.5-1 dh-autoreconf=20 dh-r=20210816 dh-strip-nondeterminism=1.12.1-1 diffutils=1:3.7-5 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 file=1:5.41-2 findutils=4.8.0-1 fontconfig=2.13.1-4.2 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 g++=4:11.2.0-2 g++-11=11.2.0-12 gcc=4:11.2.0-2 gcc-11=11.2.0-12 gcc-11-base=11.2.0-12 gettext=0.21-4 gettext-base=0.21-4 gfortran=4:11.2.0-2 gfortran-11=11.2.0-12 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 libacl1=2.3.1-1 libalgorithm-c3-perl=0.11-1 libarchive-zip-perl=1.68-1 libasan6=11.2.0-12 libatomic1=11.2.0-12 libattr1=1:2.5.1-1 libaudit-common=1:3.0.6-1 libaudit1=1:3.0.6-1+b1 libb-hooks-endofscope-perl=0.25-1 libb-hooks-op-check-perl=0.22-1+b3 libbinutils=2.37-10 libblas-dev=3.10.0-1 libblas3=3.10.0-1 libblkid1=2.37.2-4 libbrotli1=1.0.9-2+b3 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 libcairo2=1.16.0-5 libcap-ng0=0.7.9-2.2+b1 libcap2=1:2.44-1 libcc1-0=11.2.0-12 libclass-c3-perl=0.35-1 libclass-load-perl=0.25-1 libclass-load-xs-perl=0.10-1+b5 libcom-err2=1.46.4-1 libcrypt-dev=1:4.4.26-1 libcrypt1=1:4.4.26-1 libctf-nobfd0=2.37-10 libctf0=2.37-10 libcurl3-gnutls=7.79.1-2 libcurl4=7.79.1-2 libdata-optlist-perl=0.112-1 libdatrie1=0.2.13-2 libdb5.3=5.3.28+dfsg1-0.8 libdebconfclient0=0.261 libdebhelper-perl=13.5.2 libdeflate0=1.8-1 libdevel-callchecker-perl=0.008-1+b2 libdevel-globaldestruction-perl=0.14-1.1 libdevel-overloadinfo-perl=0.007-1 libdevel-stacktrace-perl=2.0400-1 libdist-checkconflicts-perl=0.11-1.1 libdpkg-perl=1.20.9 libdynaloader-functions-perl=0.003-1.1 libelf1=0.186-1 libencode-locale-perl=1.05-1.1 libeval-closure-perl=0.14-1 libexpat1=2.4.1-3 libffi8=3.4.2-3 libfile-stripnondeterminism-perl=1.12.1-1 libfile-which-perl=1.23-1 libfontconfig1=2.13.1-4.2 libfreetype6=2.11.0+dfsg-1 libfribidi0=1.0.8-2 libgcc-11-dev=11.2.0-12 libgcc-s1=11.2.0-12 libgcrypt20=1.9.4-3+b1 libgdbm-compat4=1.22-1 libgdbm6=1.22-1 libgfortran-11-dev=11.2.0-12 libgfortran5=11.2.0-12 libglib2.0-0=2.70.1-1 libgmp10=2:6.2.1+dfsg-3 libgnutls30=3.7.2-2 libgomp1=11.2.0-12 libgpg-error0=1.42-3 libgraphite2-3=1.3.14-1 libgssapi-krb5-2=1.18.3-7 libharfbuzz0b=2.7.4-1 libhogweed6=3.7.3-1 libhttp-date-perl=6.05-1 libhttp-message-perl=6.35-1 libice6=2:1.0.10-1 libicu-dev=67.1-7 libicu67=67.1-7 libidn2-0=2.3.2-2 libio-html-perl=1.004-2 libisl23=0.24-2 libitm1=11.2.0-12 libjbig0=2.1-3.1+b2 libjpeg-dev=1:2.1.1-2 libjpeg62-turbo=1:2.1.1-2 libjpeg62-turbo-dev=1:2.1.1-2 libk5crypto3=1.18.3-7 libkeyutils1=1.6.1-2 libkrb5-3=1.18.3-7 libkrb5support0=1.18.3-7 liblapack-dev=3.10.0-1 liblapack3=3.10.0-1 libldap-2.4-2=2.4.59+dfsg-1 liblsan0=11.2.0-12 liblwp-mediatypes-perl=6.04-1 liblz4-1=1.9.3-2 liblzma-dev=5.2.5-2 liblzma5=5.2.5-2 libmagic-mgc=1:5.41-2 libmagic1=1:5.41-2 libmd0=1.0.4-1 libmodule-implementation-perl=0.09-1.1 libmodule-runtime-conflicts-perl=0.003-1.1 libmodule-runtime-perl=0.016-1 libmoose-perl=2.2200-1 libmount1=2.37.2-4 libmpc3=1.2.1-1 libmpfr6=4.1.0-3 libmro-compat-perl=0.13-1 libnamespace-clean-perl=0.27-1 libncurses-dev=6.3-1 libncurses5-dev=6.3-1 libncurses6=6.3-1 libncursesw6=6.3-1 libnettle8=3.7.3-1 libnghttp2-14=1.43.0-1 libnsl-dev=1.3.0-2 libnsl2=1.3.0-2 libp11-kit0=0.24.0-5 libpackage-deprecationmanager-perl=0.17-1.1 libpackage-stash-perl=0.39-1 libpackage-stash-xs-perl=0.29-1+b2 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 libpangocairo-1.0-0=1.48.10+ds1-1 libpangoft2-1.0-0=1.48.10+ds1-1 libpaper-utils=1.1.28+b1 libpaper1=1.1.28+b1 libparams-classify-perl=0.015-1+b3 libparams-util-perl=1.102-1+b1 libpcre16-3=2:8.39-13 libpcre2-16-0=10.39-3 libpcre2-32-0=10.39-3 libpcre2-8-0=10.39-3 libpcre2-dev=10.39-3 libpcre2-posix3=10.39-3 libpcre3=2:8.39-13 libpcre3-dev=2:8.39-13 libpcre32-3=2:8.39-13 libpcrecpp0v5=2:8.39-13 libperl5.32=5.32.1-6 libpipeline1=1.5.4-1 libpixman-1-0=0.40.0-1 libpng-dev=1.6.37-3 libpng16-16=1.6.37-3 libpsl5=0.21.0-1.2 libquadmath0=11.2.0-12 libreadline-dev=8.1-2 libreadline8=8.1-2 librtmp1=2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2=2.1.27+dfsg2-2 libsasl2-modules-db=2.1.27+dfsg2-2 libscalar-list-utils-perl=1:1.59-1 libseccomp2=2.5.3-2 libselinux1=3.3-1+b1 libsigsegv2=2.13-1 libsm6=2:1.2.3-1 libsmartcols1=2.37.2-4 libssh2-1=1.10.0-2 libssl1.1=1.1.1l-1 libstdc++-11-dev=11.2.0-12 libstdc++6=11.2.0-12 libsub-exporter-perl=0.988-1 libsub-exporter-progressive-perl=0.001013-1 libsub-identify-perl=0.14-1+b3 libsub-install-perl=0.928-1.1 libsub-name-perl=0.26-1+b1 libsub-override-perl=0.09-2 libswitch-perl=2.17-2.1 libsystemd0=249.7-1 libtasn1-6=4.18.0-4 libtcl8.6=8.6.12+dfsg-1 libthai-data=0.1.28-4.1 libthai0=0.1.28-4.1 libtiff5=4.3.0-2 libtimedate-perl=2.3300-2 libtinfo6=6.3-1 libtirpc-common=1.3.2-2 libtirpc-dev=1.3.2-2 libtirpc3=1.3.2-2 libtk8.6=8.6.12-1 libtool=2.4.6-15 libtry-tiny-perl=0.30-1 libtsan0=11.2.0-12 libubsan1=11.2.0-12 libuchardet0=0.0.7-1 libudev1=249.7-1 libunistring2=0.9.10-6 liburi-perl=5.10-1 libuuid1=2.37.2-4 libvariable-magic-perl=0.62-1+b3 libwebp6=0.6.1-2.1 libwww-curl-perl=4.17-7+b1 libwww-curl-simple-perl=0.100191-2 libx11-6=2:1.7.2-2+b1 libx11-data=2:1.7.2-2 libxau6=1:1.0.9-1 libxcb-render0=1.14-3 libxcb-shm0=1.14-3 libxcb1=1.14-3 libxdmcp6=1:1.1.2-3 libxext6=2:1.3.4-1 libxft2=2.3.2-2 libxml2=2.9.12+dfsg-5+b1 libxmuu1=2:1.1.2-2+b3 libxrender1=1:0.9.10-1 libxss1=1:1.2.3-1 libxt6=1:1.2.0-1 libzstd1=1.4.8+dfsg-3 linux-libc-dev=5.15.3-1 login=1:4.8.1-2 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 ncurses-base=6.3-1 ncurses-bin=6.3-1 openssl=1.1.1l-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 r-base-core=4.1.2-1 r-base-dev=4.1.2-1 r-bioc-biocgenerics=0.40.0-1 r-bioc-zlibbioc=1.40.0+dfsg-1 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 tar=1.34+dfsg-1 tzdata=2021e-1 ucf=3.0043 unzip=6.0-26 util-linux=2.37.2-4 x11-common=1:7.7+23 xauth=1:1.1-1 xdg-utils=1.1.3-4.1 xz-utils=5.2.5-2 zip=3.0-12 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/20211124T212808Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20211124T212808Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211126T150138Z/ 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-bioc-affyio=1.64.0-1 && mkdir -p /build/r-bioc-affyio-YqQFD8 && dpkg-source --no-check -x /*.dsc /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0 && chown -R builduser:builduser /build/r-bioc-affyio-YqQFD8" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637765113" dpkg-buildpackage -uc -a amd64 --build=any" --customize-hook=sync-out /build/r-bioc-affyio-YqQFD8 /tmp/r-bioc-affyio-1.64.0-10uqa8cw7 bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211126T150138Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: tar I: using /tmp/mmdebstrap._MXZLzeA2K 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._MXZLzeA2K 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/20211126T150138Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211126T150138Z 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 (1050 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 ... 4672 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/20211124T212808Z/ unstable main deb-src http://snapshot.notset.fr/archive/debian/20211124T212808Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211126T150138Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap._MXZLzeA2K Get:1 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable InRelease [165 kB] Hit:2 http://snapshot.notset.fr/archive/debian/20211126T150138Z unstable InRelease Ign:3 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main amd64 Packages Ign:3 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main Sources Ign:4 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main amd64 Packages Get:3 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main Sources [12.5 MB] Get:4 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main amd64 Packages [12.0 MB] Fetched 24.7 MB in 21s (1195 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._MXZLzeA2K I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d r-bioc-affyio=1.64.0-1 && mkdir -p /build/r-bioc-affyio-YqQFD8 && dpkg-source --no-check -x /*.dsc /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0 && chown -R builduser:builduser /build/r-bioc-affyio-YqQFD8"' exec /tmp/mmdebstrap._MXZLzeA2K Reading package lists... NOTICE: 'r-bioc-affyio' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-affyio.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-affyio.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 117 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main r-bioc-affyio 1.64.0-1 (dsc) [2065 B] Get:2 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main r-bioc-affyio 1.64.0-1 (tar) [113 kB] Get:3 http://snapshot.notset.fr/archive/debian/20211124T212808Z unstable/main r-bioc-affyio 1.64.0-1 (diff) [2492 B] Fetched 117 kB in 0s (632 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'r-bioc-affyio_1.64.0-1.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting r-bioc-affyio in /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0 dpkg-source: info: unpacking r-bioc-affyio_1.64.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-affyio_1.64.0-1.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0 && env DEB_BUILD_OPTIONS="parallel=4" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1637765113" dpkg-buildpackage -uc -a amd64 --build=any"' exec /tmp/mmdebstrap._MXZLzeA2K dpkg-buildpackage: info: source package r-bioc-affyio dpkg-buildpackage: info: source version 1.64.0-1 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . dpkg-buildpackage: info: host architecture amd64 debian/rules clean dh clean --buildsystem R dh_auto_clean -O--buildsystem=R dh_autoreconf_clean -O--buildsystem=R dh_clean -O--buildsystem=R debian/rules binary-arch dh binary-arch --buildsystem R dh_update_autotools_config -a -O--buildsystem=R dh_autoreconf -a -O--buildsystem=R autoreconf: warning: autoconf input should be named 'configure.ac', not 'configure.in' configure.in:13: warning: The macro `AC_TRY_RUN' is obsolete. configure.in:13: You should run autoupdate. ./lib/autoconf/general.m4:2997: AC_TRY_RUN is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/headers.m4:89: _AC_CHECK_HEADER_COMPILE is expanded from... ./lib/autoconf/headers.m4:56: AC_CHECK_HEADER is expanded from... lib/m4sugar/m4sh.m4:699: AS_IF is expanded from... ./lib/autoconf/libs.m4:100: AC_CHECK_LIB is expanded from... aclocal.m4:6: R_ZLIB is expanded from... configure.in:13: the top level configure.in:70: warning: AC_OUTPUT should be used without arguments. configure.in:70: You should run autoupdate. dh_auto_configure -a -O--buildsystem=R dh_auto_build -a -O--buildsystem=R dh_auto_test -a -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -a -O--buildsystem=R dh_prep -a -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-affyio/ -a -O--buildsystem=R I: R Package: affyio Version: 1.64.0 I: Building using R version 4.1.2-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Wed, 24 Nov 2021 20:15:13 +0530 mkdir -p /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/debian/r-bioc-affyio/usr/lib/R/site-library R CMD INSTALL -l /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/debian/r-bioc-affyio/usr/lib/R/site-library --clean . "--built-timestamp='Wed, 24 Nov 2021 20:15:13 +0530'" * installing *source* package ‘affyio’ ... ** using staged installation checking for gcc... gcc 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 accepts -g... yes checking for gcc option to enable C11 features... none needed 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 main in -lz... yes checking for zlib.h... yes checking if zlib version >= 1.1.3... yes checking for pthread_create in -lpthread... yes checking if we can use pthreads... yes checking if PTHREAD_STACK_MIN is defined... yes configure: Enabling threading for affyio configure: creating ./config.status config.status: creating src/Makevars ** libs make[1]: Entering directory '/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/src' gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c fread_functions.c -o fread_functions.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/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_package.c -o init_package.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_abatch.c -o read_abatch.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_bpmap.c -o read_bpmap.o read_bpmap.c: In function ‘ReadBPMAPFileIntoRList’: read_bpmap.c:698:27: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 698 | sprintf(buf, "%d", j+1); | ^ In file included from /usr/include/stdio.h:866, from /usr/share/R/include/R.h:45, from read_bpmap.c:23: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ read_bpmap.c:655:27: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 655 | sprintf(buf, "%d", j+1); | ^ In file included from /usr/include/stdio.h:866, from /usr/share/R/include/R.h:45, from read_bpmap.c:23: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ read_bpmap.c:603:25: warning: ‘__builtin___sprintf_chk’ may write a terminating nul past the end of the destination [-Wformat-overflow=] 603 | sprintf(buf, "%d", j+1); | ^ In file included from /usr/include/stdio.h:866, from /usr/share/R/include/R.h:45, from read_bpmap.c:23: /usr/include/x86_64-linux-gnu/bits/stdio2.h:38:10: note: ‘__builtin___sprintf_chk’ output between 2 and 11 bytes into a destination of size 10 38 | return __builtin___sprintf_chk (__s, __USE_FORTIFY_LEVEL - 1, | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ 39 | __bos (__s), __fmt, __va_arg_pack ()); | ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_cdf_xda.c -o read_cdf_xda.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_cdffile2.c -o read_cdffile2.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_celfile_generic.c -o read_celfile_generic.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_clf.c -o read_clf.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_generic.c -o read_generic.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_multichannel_celfile_generic.c -o read_multichannel_celfile_generic.o gcc -std=gnu99 -std=gnu11 -I"/usr/share/R/include" -DNDEBUG -DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\" -DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DPACKAGE_URL=\"\" -DHAVE_STDIO_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1 -DHAVE_STRINGS_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_SYS_TYPES_H=1 -DHAVE_UNISTD_H=1 -DSTDC_HEADERS=1 -DHAVE_ZLIB=1 -DHAVE_LIBPTHREAD=1 -DUSE_PTHREADS=1 -g -O2 -ffile-prefix-map=/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0=. -fstack-protector-strong -Wformat -Werror=format-security -fpic -g -O2 -ffile-prefix-map=/build/r-base-PT7Nxy/r-base-4.1.2=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -g -c read_pgf.c -o read_pgf.o gcc -std=gnu99 -std=gnu11 -shared -L/usr/lib/R/lib -Wl,-z,relro -o affyio.so fread_functions.o init_package.o read_abatch.o read_bpmap.o read_cdf_xda.o read_cdffile2.o read_celfile_generic.o read_clf.o read_generic.o read_multichannel_celfile_generic.o read_pgf.o -lpthread -lz -L/usr/lib/R/lib -lR make[1]: Leaving directory '/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/src' make[1]: Entering directory '/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/src' make[1]: Leaving directory '/build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/src' installing to /build/r-bioc-affyio-YqQFD8/r-bioc-affyio-1.64.0/debian/r-bioc-affyio/usr/lib/R/site-library/00LOCK-r-bioc-affyio-1.64.0/00new/affyio/libs ** R ** byte-compile and prepare package for lazy loading ** help *** installing help indices ** building package indices ** testing if installed package can be loaded from temporary location ** checking absolute paths in shared objects and dynamic libraries ** testing if installed package can be loaded from final location ** testing if installed package keeps a record of temporary installation path * DONE (affyio) Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 299. Use of uninitialized value $dep_line in substitution (s///) at /usr/share/perl5/Dpkg/Deps.pm line 300. Use of uninitialized value $dep_line in split at /usr/share/perl5/Dpkg/Deps.pm line 303. W: Ignoring specified R dependency: R (>= 2.6.0) I: Using r-bioc-zlibbioc for Imports:zlibbioc I: BioConductor API version: r-api-bioc-3.14 I: Use r-bioc-affyio as Debian binary package for variables substitution dh_installdocs -a -O--buildsystem=R dh_installchangelogs -a -O--buildsystem=R dh_installsystemduser -a -O--buildsystem=R dh_perl -a -O--buildsystem=R dh_link -a -O--buildsystem=R dh_strip_nondeterminism -a -O--buildsystem=R dh_compress -a -O--buildsystem=R dh_fixperms -a -O--buildsystem=R dh_missing -a -O--buildsystem=R dh_dwz -a -O--buildsystem=R dh_strip -a -O--buildsystem=R dh_makeshlibs -a -O--buildsystem=R dh_shlibdeps -a -O--buildsystem=R dh_installdeb -a -O--buildsystem=R dh_gencontrol -a -O--buildsystem=R dh_md5sums -a -O--buildsystem=R dh_builddeb -a -O--buildsystem=R dpkg-deb: building package 'r-bioc-affyio' in '../r-bioc-affyio_1.64.0-1_amd64.deb'. dpkg-deb: building package 'r-bioc-affyio-dbgsym' in '../r-bioc-affyio-dbgsym_1.64.0-1_amd64.deb'. dpkg-genbuildinfo --build=any dpkg-genchanges --build=any >../r-bioc-affyio_1.64.0-1_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-bioc-affyio-YqQFD8 /tmp/r-bioc-affyio-1.64.0-10uqa8cw7 I: cleaning package lists and apt cache... I: creating tarball... I: done I: removing tempdir /tmp/mmdebstrap._MXZLzeA2K... I: success in 817.4451 seconds md5: r-bioc-affyio-dbgsym_1.64.0-1_amd64.deb: OK md5: r-bioc-affyio_1.64.0-1_amd64.deb: OK sha1: r-bioc-affyio-dbgsym_1.64.0-1_amd64.deb: OK sha1: r-bioc-affyio_1.64.0-1_amd64.deb: OK sha256: r-bioc-affyio-dbgsym_1.64.0-1_amd64.deb: OK sha256: r-bioc-affyio_1.64.0-1_amd64.deb: OK Checksums: OK