Running as unit: rb-build-arm64_12-127397.service; invocation ID: ec0a1b19ba3e421d9bc25ae13f4132ff ==================================================================================== Sat Nov 1 09:12:51 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job reproducible_builder_arm64_12) on jenkins, called using "codethink04-arm64 codethink03-arm64" as arguments. Sat Nov 1 09:12:51 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-sbWHmiyw" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Nov 1 09:12:51 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Sat Nov 1 09:12:51 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-02IffC' Sat Nov 1 09:12:51 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Sat Nov 1 09:12:52 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-ORJwez' ok, let's check if r-bioc-rtracklayer is building anywhere yet… ok, r-bioc-rtracklayer is not building anywhere… UPDATE 1 ============================================================================= Initialising reproducibly build of r-bioc-rtracklayer in unstable on arm64 on jenkins now. 1st build will be done on codethink04-arm64.debian.net. 2nd build will be done on codethink03-arm64.debian.net. ============================================================================= Sat Nov 1 09:13:08 UTC 2025 I: starting to build r-bioc-rtracklayer/unstable/arm64 on jenkins on '2025-11-01 09:12' Sat Nov 1 09:13:08 UTC 2025 I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/arm64_12/127397/console.log 1761988388 arm64 unstable r-bioc-rtracklayer Sat Nov 1 09:13:08 UTC 2025 I: Downloading source for unstable/r-bioc-rtracklayer=1.66.0-3 --2025-11-01 09:13:09-- http://deb.debian.org/debian/pool/main/r/r-bioc-rtracklayer/r-bioc-rtracklayer_1.66.0-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2460 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-rtracklayer_1.66.0-3.dsc’ 0K .. 100% 281M=0s 2025-11-01 09:13:09 (281 MB/s) - ‘r-bioc-rtracklayer_1.66.0-3.dsc’ saved [2460/2460] --2025-11-01 09:13:09-- http://deb.debian.org/debian/pool/main/r/r-bioc-rtracklayer/r-bioc-rtracklayer_1.66.0-3.dsc Connecting to 46.16.76.132:3128... connected. Proxy request sent, awaiting response... 200 OK Length: 2460 (2.4K) [text/prs.lines.tag] Saving to: ‘r-bioc-rtracklayer_1.66.0-3.dsc’ 0K .. 100% 281M=0s 2025-11-01 09:13:09 (281 MB/s) - ‘r-bioc-rtracklayer_1.66.0-3.dsc’ saved [2460/2460] Sat Nov 1 09:13:09 UTC 2025 I: r-bioc-rtracklayer_1.66.0-3.dsc -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 3.0 (quilt) Source: r-bioc-rtracklayer Binary: r-bioc-rtracklayer Architecture: any Version: 1.66.0-3 Maintainer: Debian R Packages Maintainers Uploaders: Andreas Tille , Charles Plessy Homepage: https://bioconductor.org/packages/rtracklayer/ Standards-Version: 4.7.0 Vcs-Browser: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer Vcs-Git: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Testsuite: autopkgtest-pkg-r Build-Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev Package-List: r-bioc-rtracklayer deb gnu-r optional arch=any Checksums-Sha1: 6e2bca9b4a319b288dcdd6c611171a974537c6d4 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz e106e5f62f82980aa4a198543667c675d31235ac 27896 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz Checksums-Sha256: 6f35a3465ecd67f1b9e4904a064ea533b7ec6d2509d467e9520336a87a0e093e 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz e4d8ee75e604bafa25ff27f4dffd3e95aad809e887d08c97929a7ef3c6526eab 27896 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz Files: a104b15f928583554639289984edec35 4112666 r-bioc-rtracklayer_1.66.0.orig.tar.gz 3008935e8c6c6b6fea8d5056cb527eee 27896 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmgKKHwRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtGTxw//R+cvsEUMdMWaYiMSb6vUy1VfqgQRBwuW bs8VmrCzNRkOOlglaUHvR/gh/Pv83zms8TGyH4YKzMY4u8rtYfd8A2oGpQdlrInD 9Jkvlf6thfHSLfIBaF/bkSl3iNJDBsqegS/NxnovsxP9sfEASZRzz0C8x4G7LgWt SYGo5PUqG/mXKfjXnhMNR/X56FbPsoeah//kDoU65NbGlWa2px2XhKj39vsxXRcj tNYABGFytJw4p9heNhOWSaA3JpkOlAfKz1id43oiMa7U4qDj9LpPKfLYstMSTlU/ EUDYnV+rhZpoEgnPQX/JW3rP8FvM9B0pshBZgZpS6YivnzBKzYYM5LjHMljHbFjV q4+pudYIafQdnGwwyQ6l21UKYKKeRw/z2ZmkEY0Gl8pbHSL9tGiQ8lDR42vBxQgL k0z3Vr4YMTds+xRNAwz+xgTug/BXTLSws5I2sIk0M2HoAEsrTCysjjQyFtHaSq7E WA6ORGqDT7cYqvK+VSD7IjZBn1kfr/Zy42Et9Rbc61qinim4ms0lkHLNr7Tfl0+J r2cRHvpDvwqo+gLNwZE9IpWkXKsk5M6Cb5Pkz5udllooskFCgZiWb2Fpq3UqjKqm 2YxGG1taS4tH1a9KzWdZXrl3moLL/aKJ5Ex3xz19POMuyWx1xz5rAxlJWnfqdRx7 4FjU3AFmXDI= =tClE -----END PGP SIGNATURE----- Sat Nov 1 09:13:09 UTC 2025 I: Checking whether the package is not for us Sat Nov 1 09:13:09 UTC 2025 I: Starting 1st build on remote node codethink04-arm64.debian.net. Sat Nov 1 09:13:09 UTC 2025 I: Preparing to do remote build '1' on codethink04-arm64.debian.net. Sat Nov 1 09:13:09 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink04-arm64.debian.net is marked as down. Sat Nov 1 09:13:09 UTC 2025 - checking via ssh if codethink04-arm64.debian.net is up. removed '/tmp/read-only-fs-test-C5h4tn' ==================================================================================== Sat Nov 1 09:13:10 UTC 2025 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink04-arm64, called using "1 r-bioc-rtracklayer unstable /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e 1.66.0-3" as arguments. Sat Nov 1 09:13:10 UTC 2025 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-51ieG4qM" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Sat Nov 1 09:13:10 UTC 2025 I: Downloading source for unstable/r-bioc-rtracklayer=1.66.0-3 Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (dsc) [2460 B] Get:2 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (tar) [4113 kB] Get:3 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (diff) [27.9 kB] Fetched 4143 kB in 0s (22.9 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (dsc) [2460 B] Get:2 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (tar) [4113 kB] Get:3 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (diff) [27.9 kB] Fetched 4143 kB in 0s (22.9 MB/s) Download complete and in download only mode ============================================================================= Building r-bioc-rtracklayer in unstable on arm64 on codethink04-arm64 now. Date: Sat Nov 1 09:13:10 GMT 2025 Date UTC: Sat Nov 1 09:13:10 UTC 2025 ============================================================================= W: /root/.pbuilderrc does not exist I: Logging to b1/build.log I: pbuilder: network access will be disabled during build I: Current time: Fri Oct 31 21:13:10 -12 2025 I: pbuilder-time-stamp: 1761988391 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [r-bioc-rtracklayer_1.66.0-3.dsc] I: copying [./r-bioc-rtracklayer_1.66.0.orig.tar.gz] I: copying [./r-bioc-rtracklayer_1.66.0-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-3.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-rtracklayer in r-bioc-rtracklayer-1.66.0 dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying delete_configure.patch dpkg-source: info: applying Fix_autopkgtest.patch dpkg-source: info: applying C23compat.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a5387f3e806f47f899f837c04e750f37' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='282570' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_F2OS --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1 --logfile b1/build.log r-bioc-rtracklayer_1.66.0-3.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicranges; however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-cran-xml; however: Package r-cran-xml is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors; however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-iranges; however: Package r-bioc-iranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-xvector; however: Package r-bioc-xvector is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomeinfodb; however: Package r-bioc-genomeinfodb is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings; however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-zlibbioc; however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-curl; however: Package r-cran-curl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-httr; however: Package r-cran-httr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rsamtools; however: Package r-bioc-rsamtools is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicalignments; however: Package r-bioc-genomicalignments is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocio; however: Package r-bioc-biocio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-restfulr; however: Package r-cran-restfulr is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev; however: Package libcurl4-openssl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gcc-14-base{a} gettext{a} gettext-base{a} gfortran{a} gfortran-15{a} gfortran-15-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} krb5-multidev{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcc-14-dev{a} libgfortran-15-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu76{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper2{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libstdc++-14-dev{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} libunistring5{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2-16{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-biocparallel{a} r-bioc-biostrings{a} r-bioc-delayedarray{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicranges{a} r-bioc-iranges{a} r-bioc-matrixgenerics{a} r-bioc-rhtslib{a} r-bioc-rsamtools{a} r-bioc-s4arrays{a} r-bioc-s4vectors{a} r-bioc-sparsearray{a} r-bioc-summarizedexperiment{a} r-bioc-ucsc.utils{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-abind{a} r-cran-askpass{a} r-cran-bh{a} r-cran-bitops{a} r-cran-codetools{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-snow{a} r-cran-sys{a} r-cran-xml{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-base64enc r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr r-cran-decor r-cran-desc r-cran-digest r-cran-ggplot2 r-cran-glue r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-lobstr r-cran-markdown r-cran-microbenchmark r-cran-mockery r-cran-png r-cran-progress r-cran-r.devices r-cran-r.rsp r-cran-rcpp r-cran-readr r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-scales r-cran-sf r-cran-shiny r-cran-sodium r-cran-spelling r-cran-survival r-cran-testit r-cran-testthat r-cran-tibble r-cran-vctrs r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 280 newly installed, 0 to remove and 0 not upgraded. Need to get 197 MB of archives. After unpacking 690 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-5 [260 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.4-1 [1457 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libtext-charwidth-perl arm64 0.04-11+b4 [9652 B] Get: 19 http://deb.debian.org/debian unstable/main arm64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 20 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 dctrl-tools arm64 2.24-3+b1 [125 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-7 [540 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 36 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.194-1 [184 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libxml2-16 arm64 2.15.1+dfsg-0.3 [591 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.28 [941 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 zip arm64 3.0-15 [227 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-29 [163 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b2 [16.6 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 2.2.5-0.3+b2 [16.4 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.2.1-2 [75.8 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.50-1 [275 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.4 [318 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.4 [387 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.46.4-1 [174 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.12.0-1 [63.6 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.16.0-1 [123 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 73 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-10 [19.8 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-10 [55.0 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl0 arm64 1.16.0-1 [25.7 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.9-2 [420 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-3 [1384 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.17.0~rc3-1 [370 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.86.1-1 [1436 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-4 [9524 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 15.2.0-7 [371 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2.4 [463 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-3 [26.5 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-11 [70.8 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 12.1.0-1 [486 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-4 [37.4 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.3-2 [222 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.3-2 [56.5 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.3-2 [35.3 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 libtcl8.6 arm64 8.6.17+dfsg-1 [982 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.1-1 [334 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.6+ds-1 [11.0 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.6+ds-1 [79.1 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+26 [217 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 libtk8.6 arm64 8.6.17-1 [740 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.6-1 [36.4 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [182 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 r-base-core arm64 4.5.2-1 [28.4 MB] Get: 122 http://deb.debian.org/debian unstable/main arm64 libgfortran-15-dev arm64 15.2.0-7 [411 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 gfortran-15-aarch64-linux-gnu arm64 15.2.0-7 [10.8 MB] Get: 124 http://deb.debian.org/debian unstable/main arm64 gfortran-15 arm64 15.2.0-7 [18.0 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 gfortran-aarch64-linux-gnu arm64 4:15.2.0-4 [1280 B] Get: 126 http://deb.debian.org/debian unstable/main arm64 gfortran arm64 4:15.2.0-4 [1428 B] Get: 127 http://deb.debian.org/debian unstable/main arm64 libblas-dev arm64 3.12.1-7 [145 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 liblapack-dev arm64 3.12.1-7 [3829 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5+20250216-2 [96.1 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.5+20250216-2 [340 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 libreadline-dev arm64 8.3-3 [163 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-4 [293 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 libjpeg-dev arm64 1:2.1.5-4 [72.2 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.46-1 [247 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.46-1 [238 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.46-1 [64.1 kB] Get: 137 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.46-1 [750 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.50-1 [361 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 141 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-2 [344 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 76.1-4 [200 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 76.1-4 [10.6 MB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libxmuu1 arm64 2:1.1.3-3+b4 [22.0 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 xauth arm64 1:1.1.2-1.1 [35.4 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 libtirpc-dev arm64 1.3.6+ds-1 [192 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.7+dfsg-2 [330 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 r-base-dev all 4.5.2-1 [2040 B] Get: 153 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libswitch-perl all 2.17-3 [20.3 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 158 http://deb.debian.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 liburi-perl all 5.34-2 [111 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libparams-util-perl arm64 1.102-3+b1 [23.7 kB] Get: 164 http://deb.debian.org/debian unstable/main arm64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-2 [15.7 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 libclass-load-xs-perl arm64 0.10-2+b4 [14.3 kB] Get: 176 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 177 http://deb.debian.org/debian unstable/main arm64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 178 http://deb.debian.org/debian unstable/main arm64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libdevel-overloadinfo-perl all 0.008-1 [7748 B] Get: 182 http://deb.debian.org/debian unstable/main arm64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 187 http://deb.debian.org/debian unstable/main arm64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 188 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-xs-perl arm64 0.30-1+b4 [19.0 kB] Get: 189 http://deb.debian.org/debian unstable/main arm64 libmoose-perl arm64 2.4000-1 [766 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 libvariable-magic-perl arm64 0.64-1+b1 [43.9 kB] Get: 191 http://deb.debian.org/debian unstable/main arm64 libb-hooks-endofscope-perl all 0.28-2 [17.6 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libsub-identify-perl arm64 0.14-3+b3 [11.2 kB] Get: 193 http://deb.debian.org/debian unstable/main arm64 libsub-name-perl arm64 0.28-1 [12.1 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.16.0-1 [23.8 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.17.0~rc3-1 [362 kB] Get: 197 http://deb.debian.org/debian unstable/main arm64 libwww-curl-perl arm64 4.17-12 [57.7 kB] Get: 198 http://deb.debian.org/debian unstable/main arm64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 dh-r all 20250812 [42.6 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 gcc-14-base arm64 14.3.0-10 [52.4 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 libgcc-14-dev arm64 14.3.0-10 [2366 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 libstdc++-14-dev arm64 14.3.0-10 [2568 kB] Get: 208 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5 [10.6 MB] Get: 209 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 210 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 212 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 libnghttp3-dev arm64 1.12.0-1 [91.6 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl-dev arm64 1.16.0-1 [27.6 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 libngtcp2-dev arm64 1.16.0-1 [183 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.24.1-2 [560 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.10-3 [456 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.10-3 [455 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.9-2 [220 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10.2-1 [1319 kB] Get: 228 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.10-3 [1414 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.5.4-1 [3377 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libcurl4-openssl-dev arm64 8.17.0~rc3-1 [505 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocgenerics all 0.52.0-2 [627 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 r-bioc-biobase arm64 2.66.0-2 [2316 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4vectors arm64 0.44.0+dfsg-2 [2056 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocio all 1.16.0+dfsg-2 [210 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 r-cran-formatr all 1.14-2 [152 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get: 240 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 r-cran-bh all 1.84.0-1 [5912 B] Get: 244 http://deb.debian.org/debian unstable/main arm64 r-cran-cpp11 all 0.5.2-1 [226 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocparallel arm64 1.40.0-2 [1321 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 r-bioc-iranges arm64 2.40.1-3 [2307 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [9968 B] Get: 248 http://deb.debian.org/debian unstable/main arm64 r-bioc-xvector arm64 0.46.0-2 [618 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 r-cran-curl arm64 7.0.0+dfsg-1 [199 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 r-cran-jsonlite arm64 1.9.1+dfsg-1 [443 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 r-cran-mime arm64 0.12-2+b1 [36.1 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 r-cran-sys arm64 3.4.3-1 [44.2 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 r-cran-askpass arm64 1.2.1-1 [24.4 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 r-cran-openssl arm64 2.3.2+dfsg-1 [400 kB] Get: 255 http://deb.debian.org/debian unstable/main arm64 r-cran-r6 all 2.6.1-1 [106 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.3 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] Get: 259 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3848 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 r-cran-crayon all 1.5.3-1 [165 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 r-bioc-biostrings arm64 2.74.1+dfsg-2 [13.4 MB] Get: 262 http://deb.debian.org/debian unstable/main arm64 r-cran-lattice arm64 0.22-7-1 [1418 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 r-cran-matrix arm64 1.7-4-1 [4031 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 r-cran-matrixstats arm64 1.5.0-1 [485 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 r-bioc-matrixgenerics all 1.18.1-1 [449 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 r-cran-abind all 1.4-8-1 [68.1 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4arrays arm64 1.6.0+dfsg-2 [701 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 r-bioc-sparsearray arm64 1.6.2+dfsg-2 [1362 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 r-bioc-delayedarray arm64 0.32.0+dfsg-2 [2076 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicranges arm64 1.58.0+dfsg-2 [2092 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1116 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 r-cran-bitops arm64 1.0-9-1 [30.7 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 r-bioc-rhtslib arm64 3.2.0+dfsg-2 [1311 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 r-bioc-rsamtools arm64 2.22.0+dfsg-2 [3565 kB] Get: 275 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicalignments arm64 1.42.0-2 [2160 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 r-cran-rcurl arm64 1.98-1.16+dfsg-1 [798 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 r-cran-xml arm64 3.99-0.19-1 [1763 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 r-cran-rjson arm64 0.2.23-1 [99.0 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 r-cran-yaml arm64 2.3.10-1 [103 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 r-cran-restfulr arm64 0.0.15-1+b1 [389 kB] Fetched 197 MB in 3s (68.4 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 19964 files and directories currently installed.) Preparing to unpack .../000-libexpat1_2.7.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.3-1) ... Selecting previously unselected package tzdata. Preparing to unpack .../001-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-9_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-9_arm64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package readline-common. Preparing to unpack .../004-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.5.4-1_arm64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../009-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../012-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../015-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../016-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package libtext-charwidth-perl:arm64. Preparing to unpack .../017-libtext-charwidth-perl_0.04-11+b4_arm64.deb ... Unpacking libtext-charwidth-perl:arm64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../018-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../019-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../020-architecture-properties_0.2.6_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.6) ... Selecting previously unselected package m4. Preparing to unpack .../021-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../022-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../023-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../024-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../025-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../026-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... Selecting previously unselected package comerr-dev:arm64. Preparing to unpack .../027-comerr-dev_2.1-1.47.2-3+b3_arm64.deb ... Unpacking comerr-dev:arm64 (2.1-1.47.2-3+b3) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../028-dctrl-tools_2.24-3+b1_arm64.deb ... Unpacking dctrl-tools (2.24-3+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../029-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../030-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../031-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../032-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libtcl8.6:arm64. Preparing to unpack .../105-libtcl8.6_8.6.17+dfsg-1_arm64.deb ... Unpacking libtcl8.6:arm64 (8.6.17+dfsg-1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../106-libjbig0_2.1-6.1+b2_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b2) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../107-liblerc4_4.0.0+ds-5_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-5) ... Selecting previously unselected package libsharpyuv0:arm64. Preparing to unpack .../108-libsharpyuv0_1.5.0-0.1_arm64.deb ... Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../109-libwebp7_1.5.0-0.1_arm64.deb ... Unpacking libwebp7:arm64 (1.5.0-0.1) ... Selecting previously unselected package libtiff6:arm64. Preparing to unpack .../110-libtiff6_4.7.1-1_arm64.deb ... Unpacking libtiff6:arm64 (4.7.1-1) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../111-libtirpc-common_1.3.6+ds-1_all.deb ... Unpacking libtirpc-common (1.3.6+ds-1) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../112-libtirpc3t64_1.3.6+ds-1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.6+ds-1) ... Selecting previously unselected package libxft2:arm64. Preparing to unpack .../113-libxft2_2.3.6-1+b4_arm64.deb ... Unpacking libxft2:arm64 (2.3.6-1+b4) ... Selecting previously unselected package x11-common. Preparing to unpack .../114-x11-common_1%3a7.7+26_all.deb ... Unpacking x11-common (1:7.7+26) ... Selecting previously unselected package libxss1:arm64. Preparing to unpack .../115-libxss1_1%3a1.2.3-1+b3_arm64.deb ... Unpacking libxss1:arm64 (1:1.2.3-1+b3) ... Selecting previously unselected package libtk8.6:arm64. Preparing to unpack .../116-libtk8.6_8.6.17-1_arm64.deb ... Unpacking libtk8.6:arm64 (8.6.17-1) ... Selecting previously unselected package libice6:arm64. 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Setting up libblas3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libunbound8:arm64 (1.24.1-2) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-5) ... Setting up libalgorithm-c3-perl (0.11-2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-4) ... Setting up libswitch-perl (2.17-3) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libjpeg62-turbo-dev:arm64 (1:2.1.5-4) ... Setting up libncurses6:arm64 (6.5+20250216-2) ... Setting up libfribidi0:arm64 (1.0.16-3) ... Setting up libproc2-0:arm64 (2:4.0.4-9) ... Setting up comerr-dev:arm64 (2.1-1.47.2-3+b3) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:arm64 (3.5.4-1) ... Setting up libpng16-16t64:arm64 (1.6.50-1) ... Setting up libvariable-magic-perl (0.64-1+b1) ... 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Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up liburi-perl (5.34-2) ... Setting up libxmuu1:arm64 (2:1.1.3-3+b4) ... Setting up libbrotli-dev:arm64 (1.1.0-2+b7) ... Setting up libblas-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libice6:arm64 (2:1.1.1-1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up liblapack3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libboost1.83-dev:arm64 (1.83.0-5) ... Setting up libncurses-dev:arm64 (6.5+20250216-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-5) ... Setting up libpcre2-dev:arm64 (10.46-1) ... Setting up nettle-dev:arm64 (3.10.2-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-7) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libpng-dev:arm64 (1.6.50-1) ... Setting up libjpeg-dev:arm64 (1:2.1.5-4) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up libpaper-utils (2.2.5-0.3+b2) ... Setting up libclass-c3-perl (0.35-2) ... Setting up libngtcp2-dev:arm64 (1.16.0-1) ... Setting up libdevel-callchecker-perl:arm64 (0.009-2) ... Setting up libgfortran-15-dev:arm64 (15.2.0-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.86.1-1) ... No schema files found: doing nothing. Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up gfortran-15-aarch64-linux-gnu (15.2.0-7) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.9-2) ... Setting up liblapack-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up icu-devtools (76.1-4) ... Setting up ucf (3.0052) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-4) ... Setting up libngtcp2-crypto-ossl0:arm64 (1.16.0-1) ... Setting up libngtcp2-crypto-ossl-dev:arm64 (1.16.0-1) ... Setting up libreadline8t64:arm64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up xauth (1:1.1.2-1.1) ... Setting up groff-base (1.23.0-9) ... Setting up libharfbuzz0b:arm64 (12.1.0-1) ... Setting up gfortran-aarch64-linux-gnu (4:15.2.0-4) ... Setting up libboost-dev:arm64 (1.83.0.2+b2) ... Setting up libxss1:arm64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:arm64 (2.15.0-2.4) ... Setting up libmro-compat-perl (0.15-2) ... Setting up libsm6:arm64 (2:1.2.6-1) ... Setting up libicu-dev:arm64 (76.1-4) ... Setting up libp11-kit-dev:arm64 (0.25.9-2) ... Setting up gfortran-15 (15.2.0-7) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libhttp-message-perl (7.01-1) ... Setting up libeval-closure-perl (0.14-3) ... Setting up libgnutls30t64:arm64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.10-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up libtirpc3t64:arm64 (1.3.6+ds-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.17-1) ... Setting up libparams-classify-perl:arm64 (0.015-2+b4) ... Setting up libpango-1.0-0:arm64 (1.56.3-2) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libreadline-dev:arm64 (8.3-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran (4:15.2.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:arm64 (1.18.4-1+b1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up libtirpc-dev:arm64 (1.3.6+ds-1) ... Setting up libgnutls-dane0t64:arm64 (3.8.10-3) ... Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:arm64 (1.21.3-5) ... Setting up libxt6t64:arm64 (1:1.2.1-1.3) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libpangoft2-1.0-0:arm64 (1.56.3-2) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.16.0-1) ... Setting up libpangocairo-1.0-0:arm64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up libgnutls28-dev:arm64 (3.8.10-3) ... Setting up libcurl4t64:arm64 (8.17.0~rc3-1) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libcurl3t64-gnutls:arm64 (8.17.0~rc3-1) ... Setting up libwww-curl-perl:arm64 (4.17-12) ... Setting up debhelper (13.28) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libclass-load-perl (0.25-2) ... Setting up r-base-core (4.5.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.3-1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.22-7-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up r-cran-xml (3.99-0.19-1) ... Setting up libpackage-deprecationmanager-perl (0.18-1) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libdevel-overloadinfo-perl (0.008-1) ... Setting up libclass-load-xs-perl (0.10-2+b4) ... Setting up r-cran-rjson (0.2.23-1) ... Setting up r-cran-r6 (2.6.1-1) ... Setting up libb-hooks-endofscope-perl (0.28-2) ... Setting up r-bioc-genomeinfodbdata (1.2.13-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-curl (7.0.0+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-bioc-biocgenerics (0.52.0-2) ... Setting up r-cran-matrixstats (1.5.0-1) ... Setting up r-base-dev (4.5.2-1) ... Setting up r-bioc-matrixgenerics (1.18.1-1) ... Setting up r-cran-sys (3.4.3-1) ... Setting up r-cran-mime (0.12-2+b1) ... Setting up libmoose-perl:arm64 (2.4000-1) ... Setting up r-cran-abind (1.4-8-1) ... Setting up r-cran-yaml (2.3.10-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-cran-bitops (1.0-9-1) ... Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ... Setting up r-cran-askpass (1.2.1-1) ... Setting up r-bioc-biobase (2.66.0-2) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... Setting up libcurl4-openssl-dev:arm64 (8.17.0~rc3-1) ... Setting up r-cran-cpp11 (0.5.2-1) ... Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-cran-matrix (1.7-4-1) ... Setting up r-bioc-iranges (2.40.1-3) ... Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... Setting up r-cran-restfulr (0.0.15-1+b1) ... Setting up r-cran-openssl (2.3.2+dfsg-1) ... Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... Setting up r-bioc-biocparallel (1.40.0-2) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... Setting up r-bioc-biocio (1.16.0+dfsg-2) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-bioc-xvector (0.46.0-2) ... Setting up dh-r (20250812) ... Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... Setting up r-bioc-sparsearray (1.6.2+dfsg-2) ... Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... Setting up r-bioc-genomicalignments (1.42.0-2) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/r-bioc-rtracklayer-1.66.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../r-bioc-rtracklayer_1.66.0-3_source.changes dpkg-buildpackage: info: source package r-bioc-rtracklayer dpkg-buildpackage: info: source version 1.66.0-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Rebecca N. Palmer dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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 dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R configure.ac:19: warning: AC_OUTPUT should be used without arguments. configure.ac:19: You should run autoupdate. dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-rtracklayer/ -O--buildsystem=R I: R Package: rtracklayer Version: 1.66.0 I: Building using R version 4.5.2-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Wed, 23 Apr 2025 19:58:02 +0100 mkdir -p /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library R CMD INSTALL -l /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library --clean . --built-timestamp="'Wed, 23 Apr 2025 19:58:02 +0100'" * installing *source* package 'rtracklayer' ... ** this is package 'rtracklayer' version '1.66.0' files 'configure', 'inst/unitTests/test_bed.R', 'src/ucsc/common.c', 'src/ucsc/common.h', 'tests/rtracklayer_unit_tests.R' have the wrong MD5 checksums ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for openssl >= 1.0... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: 'gcc (Debian 15.2.0-7) 15.2.0' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c XVector_stubs.c -o XVector_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c readGFF.c -o readGFF.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bbiHelper.c -o bbiHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigWig.c -o bigWig.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBedHelper.c -o bigBedHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBed.c -o bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chain_io.c -o chain_io.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c twoBit.c -o twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c handlers.c -o handlers.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memgfx.c -o ucsc/memgfx.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/binRange.c -o ucsc/binRange.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlColor.c -o ucsc/htmlColor.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlList.c -o ucsc/sqlList.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/tokenizer.c -o ucsc/tokenizer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/asParse.c -o ucsc/asParse.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/basicBed.c -o ucsc/basicBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bigBed.c -o ucsc/bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/cirTree.c -o ucsc/cirTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/common.c -o ucsc/common.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnautil.c -o ucsc/dnautil.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/errAbort.c -o ucsc/errAbort.o ucsc/errAbort.c: In function 'getThreadVars': ucsc/errAbort.c:255:5: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 255 | write(STDERR_FILENO, errMsg, strlen(errMsg)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hash.c -o ucsc/hash.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/linefile.c -o ucsc/linefile.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/localmem.c -o ucsc/localmem.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/zlibFace.c -o ucsc/zlibFace.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dystring.c -o ucsc/dystring.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/obscure.c -o ucsc/obscure.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/pipeline.c -o ucsc/pipeline.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rbTree.c -o ucsc/rbTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memalloc.c -o ucsc/memalloc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dlist.c -o ucsc/dlist.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/filePath.c -o ucsc/filePath.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlPage.c -o ucsc/htmlPage.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/udc.c -o ucsc/udc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/net.c -o ucsc/net.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bits.c -o ucsc/bits.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/twoBit.c -o ucsc/twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/internet.c -o ucsc/internet.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/https.c -o ucsc/https.o ucsc/https.c: In function 'openSslInit': ucsc/https.c:76:5: warning: 'ERR_load_SSL_strings' is deprecated: Since OpenSSL 3.0 [-Wdeprecated-declarations] 76 | ERR_load_SSL_strings(); | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/openssl/sslerr.h:17, from /usr/include/openssl/ssl.h:44, from ucsc/https.c:8: /usr/include/openssl/sslerr_legacy.h:29:27: note: declared here 29 | OSSL_DEPRECATEDIN_3_0 int ERR_load_SSL_strings(void); | ^~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/base64.c -o ucsc/base64.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/verbose.c -o ucsc/verbose.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/os.c -o ucsc/os.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o rtracklayer.so S4Vectors_stubs.o IRanges_stubs.o XVector_stubs.o R_init_rtracklayer.o readGFF.o bbiHelper.o bigWig.o bigBedHelper.o bigBed.o chain_io.o twoBit.o handlers.o utils.o ucsc/memgfx.o ucsc/binRange.o ucsc/htmlColor.o ucsc/sqlList.o ucsc/tokenizer.o ucsc/asParse.o ucsc/basicBed.o ucsc/bigBed.o ucsc/bPlusTree.o ucsc/bbiRead.o ucsc/bbiWrite.o ucsc/bwgCreate.o ucsc/bwgQuery.o ucsc/cirTree.o ucsc/common.o ucsc/dnaseq.o ucsc/dnautil.o ucsc/errAbort.o ucsc/hash.o ucsc/linefile.o ucsc/localmem.o ucsc/sqlNum.o ucsc/zlibFace.o ucsc/dystring.o ucsc/hmmstats.o ucsc/obscure.o ucsc/pipeline.o ucsc/rangeTree.o ucsc/rbTree.o ucsc/memalloc.o ucsc/dlist.o ucsc/filePath.o ucsc/htmlPage.o ucsc/udc.o ucsc/net.o ucsc/bits.o ucsc/twoBit.o ucsc/_cheapcgi.o ucsc/internet.o ucsc/https.o ucsc/base64.o ucsc/verbose.o ucsc/os.o ucsc/wildcmp.o ucsc/_portimpl.o -lz -pthread -lssl -lcrypto -lcurl -L/usr/lib/R/lib -lR /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcrypto.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' installing to /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/00LOCK-r-bioc-rtracklayer-1.66.0/00new/rtracklayer/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'offset' from package 'stats' in package 'rtracklayer' ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (rtracklayer) rm -f /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/rtracklayer/LICENSE W: Ignoring specified R dependency: R (>= 3.5.0) I: Using r-bioc-genomicranges for Depends:GenomicRanges (>= 1.37.2) I: Using r-bioc-bsgenome for Suggests:BSgenome (>= 1.33.4) W: Cannot find a debian package for Suggests:humanStemCell W: Cannot find a debian package for Suggests:microRNA (>= 1.1.1) I: Using r-bioc-genefilter for Suggests:genefilter I: Using r-bioc-limma for Suggests:limma I: Using r-bioc-org.hs.eg.db for Suggests:org.Hs.eg.db W: Cannot find a debian package for Suggests:hgu133plus2.db I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg19 W: Cannot find a debian package for Suggests:TxDb.Hsapiens.UCSC.hg19.knownGene I: Using r-cran-runit for Suggests:RUnit I: Using r-cran-xml for Imports:XML (>= 1.98-0) I: Using r-bioc-biocgenerics for Imports:BiocGenerics (>= 0.35.3) I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.23.18) I: Using r-bioc-iranges for Imports:IRanges (>= 2.13.13) I: Using r-bioc-xvector for Imports:XVector (>= 0.19.7) I: Using r-bioc-genomeinfodb for Imports:GenomeInfoDb (>= 1.15.2) I: Using r-bioc-biostrings for Imports:Biostrings (>= 2.47.6) I: Using r-bioc-zlibbioc for Imports:zlibbioc I: Using r-cran-curl for Imports:curl I: Using r-cran-httr for Imports:httr I: Using r-bioc-rsamtools for Imports:Rsamtools (>= 1.31.2) I: Using r-bioc-genomicalignments for Imports:GenomicAlignments (>= 1.15.6) I: Using r-bioc-biocio for Imports:BiocIO I: Using r-cran-restfulr for Imports:restfulr (>= 0.0.13) I: Using r-bioc-s4vectors for LinkingTo:S4Vectors I: Using r-bioc-iranges for LinkingTo:IRanges I: Using r-bioc-xvector for LinkingTo:XVector I: BioConductor API version: r-api-bioc-3.20 I: Use r-bioc-rtracklayer as Debian binary package for variables substitution dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-rtracklayer' in '../r-bioc-rtracklayer_1.66.0-3_arm64.deb'. dpkg-deb: building package 'r-bioc-rtracklayer-dbgsym' in '../r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/282570 and its subdirectories I: Current time: Fri Oct 31 21:14:42 -12 2025 I: pbuilder-time-stamp: 1761988482 Sat Nov 1 09:14:42 UTC 2025 I: Signing ./b1/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo as r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc Sat Nov 1 09:14:42 UTC 2025 I: Signed ./b1/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo as ./b1/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc Sat Nov 1 09:14:42 UTC 2025 - build #1 for r-bioc-rtracklayer/unstable/arm64 on codethink04-arm64 done. Starting cleanup. All cleanup done. Sat Nov 1 09:14:42 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-51ieG4qM, removing. /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e: total 16 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 09:14 b1 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 09:13 b2 -rw-rw-r-- 1 jenkins jenkins 2460 Apr 24 2025 r-bioc-rtracklayer_1.66.0-3.dsc -rw------- 1 jenkins jenkins 3653 Nov 1 09:13 rbuildlog.HavS7uQ /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1: total 5688 -rw-r--r-- 1 jenkins jenkins 142723 Nov 1 09:14 build.log -rw-r--r-- 1 jenkins jenkins 384384 Nov 1 09:14 r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb -rw-r--r-- 1 jenkins jenkins 27896 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2460 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3.dsc -rw-r--r-- 1 jenkins jenkins 12817 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 13699 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1557 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.changes -rw-r--r-- 1 jenkins jenkins 5219076 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.deb -rw-r--r-- 1 jenkins jenkins 1368 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2: total 0 Sat Nov 1 09:14:43 UTC 2025 I: Deleting $TMPDIR on codethink04-arm64.debian.net. I: pbuilder: network access will be disabled during build I: Current time: Fri Oct 31 21:13:10 -12 2025 I: pbuilder-time-stamp: 1761988391 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [r-bioc-rtracklayer_1.66.0-3.dsc] I: copying [./r-bioc-rtracklayer_1.66.0.orig.tar.gz] I: copying [./r-bioc-rtracklayer_1.66.0-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-3.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-rtracklayer in r-bioc-rtracklayer-1.66.0 dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying delete_configure.patch dpkg-source: info: applying Fix_autopkgtest.patch dpkg-source: info: applying C23compat.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='arm64' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='arm64' IFS=' ' INVOCATION_ID='a5387f3e806f47f899f837c04e750f37' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='282570' PS1='# ' PS2='> ' PS4='+ ' PWD='/' SHELL='/bin/bash' SHLVL='2' SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_F2OS --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1 --logfile b1/build.log r-bioc-rtracklayer_1.66.0-3.dsc' SUDO_GID='109' SUDO_HOME='/var/lib/jenkins' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' http_proxy='http://192.168.101.4:3128' I: uname -a Linux codethink04-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicranges; however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-cran-xml; however: Package r-cran-xml is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors; however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-iranges; however: Package r-bioc-iranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-xvector; however: Package r-bioc-xvector is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomeinfodb; however: Package r-bioc-genomeinfodb is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings; however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-zlibbioc; however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-curl; however: Package r-cran-curl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-httr; however: Package r-cran-httr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rsamtools; however: Package r-bioc-rsamtools is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicalignments; however: Package r-bioc-genomicalignments is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocio; however: Package r-bioc-biocio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-restfulr; however: Package r-cran-restfulr is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev; however: Package libcurl4-openssl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gcc-14-base{a} gettext{a} gettext-base{a} gfortran{a} gfortran-15{a} gfortran-15-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} krb5-multidev{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcc-14-dev{a} libgfortran-15-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu76{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper2{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libstdc++-14-dev{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} libunistring5{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2-16{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-biocparallel{a} r-bioc-biostrings{a} r-bioc-delayedarray{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicranges{a} r-bioc-iranges{a} r-bioc-matrixgenerics{a} r-bioc-rhtslib{a} r-bioc-rsamtools{a} r-bioc-s4arrays{a} r-bioc-s4vectors{a} r-bioc-sparsearray{a} r-bioc-summarizedexperiment{a} r-bioc-ucsc.utils{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-abind{a} r-cran-askpass{a} r-cran-bh{a} r-cran-bitops{a} r-cran-codetools{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-snow{a} r-cran-sys{a} r-cran-xml{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-base64enc r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr r-cran-decor r-cran-desc r-cran-digest r-cran-ggplot2 r-cran-glue r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-lobstr r-cran-markdown r-cran-microbenchmark r-cran-mockery r-cran-png r-cran-progress r-cran-r.devices r-cran-r.rsp r-cran-rcpp r-cran-readr r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-scales r-cran-sf r-cran-shiny r-cran-sodium r-cran-spelling r-cran-survival r-cran-testit r-cran-testthat r-cran-tibble r-cran-vctrs r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 280 newly installed, 0 to remove and 0 not upgraded. Need to get 197 MB of archives. After unpacking 690 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-5 [260 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.4-1 [1457 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libtext-charwidth-perl arm64 0.04-11+b4 [9652 B] Get: 19 http://deb.debian.org/debian unstable/main arm64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 20 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 dctrl-tools arm64 2.24-3+b1 [125 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-7 [540 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 36 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.194-1 [184 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libxml2-16 arm64 2.15.1+dfsg-0.3 [591 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.28 [941 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 zip arm64 3.0-15 [227 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-29 [163 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b2 [16.6 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 2.2.5-0.3+b2 [16.4 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.2.1-2 [75.8 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.50-1 [275 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.4 [318 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.4 [387 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.46.4-1 [174 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.12.0-1 [63.6 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.16.0-1 [123 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 73 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-10 [19.8 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-10 [55.0 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl0 arm64 1.16.0-1 [25.7 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.9-2 [420 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-3 [1384 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.17.0~rc3-1 [370 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.86.1-1 [1436 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-4 [9524 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 15.2.0-7 [371 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2.4 [463 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-3 [26.5 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-11 [70.8 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 12.1.0-1 [486 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-4 [37.4 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.3-2 [222 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.3-2 [56.5 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.3-2 [35.3 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 libtcl8.6 arm64 8.6.17+dfsg-1 [982 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.1-1 [334 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.6+ds-1 [11.0 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.6+ds-1 [79.1 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+26 [217 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 libtk8.6 arm64 8.6.17-1 [740 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.6-1 [36.4 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [182 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 r-base-core arm64 4.5.2-1 [28.4 MB] Get: 122 http://deb.debian.org/debian unstable/main arm64 libgfortran-15-dev arm64 15.2.0-7 [411 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 gfortran-15-aarch64-linux-gnu arm64 15.2.0-7 [10.8 MB] Get: 124 http://deb.debian.org/debian unstable/main arm64 gfortran-15 arm64 15.2.0-7 [18.0 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 gfortran-aarch64-linux-gnu arm64 4:15.2.0-4 [1280 B] Get: 126 http://deb.debian.org/debian unstable/main arm64 gfortran arm64 4:15.2.0-4 [1428 B] Get: 127 http://deb.debian.org/debian unstable/main arm64 libblas-dev arm64 3.12.1-7 [145 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 liblapack-dev arm64 3.12.1-7 [3829 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5+20250216-2 [96.1 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.5+20250216-2 [340 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 libreadline-dev arm64 8.3-3 [163 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-4 [293 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 libjpeg-dev arm64 1:2.1.5-4 [72.2 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.46-1 [247 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.46-1 [238 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.46-1 [64.1 kB] Get: 137 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.46-1 [750 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.50-1 [361 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 141 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-2 [344 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 76.1-4 [200 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 76.1-4 [10.6 MB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libxmuu1 arm64 2:1.1.3-3+b4 [22.0 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 xauth arm64 1:1.1.2-1.1 [35.4 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 libtirpc-dev arm64 1.3.6+ds-1 [192 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.7+dfsg-2 [330 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 r-base-dev all 4.5.2-1 [2040 B] Get: 153 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libswitch-perl all 2.17-3 [20.3 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 158 http://deb.debian.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 liburi-perl all 5.34-2 [111 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libparams-util-perl arm64 1.102-3+b1 [23.7 kB] Get: 164 http://deb.debian.org/debian unstable/main arm64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-2 [15.7 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 libclass-load-xs-perl arm64 0.10-2+b4 [14.3 kB] Get: 176 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 177 http://deb.debian.org/debian unstable/main arm64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 178 http://deb.debian.org/debian unstable/main arm64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libdevel-overloadinfo-perl all 0.008-1 [7748 B] Get: 182 http://deb.debian.org/debian unstable/main arm64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 187 http://deb.debian.org/debian unstable/main arm64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 188 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-xs-perl arm64 0.30-1+b4 [19.0 kB] Get: 189 http://deb.debian.org/debian unstable/main arm64 libmoose-perl arm64 2.4000-1 [766 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 libvariable-magic-perl arm64 0.64-1+b1 [43.9 kB] Get: 191 http://deb.debian.org/debian unstable/main arm64 libb-hooks-endofscope-perl all 0.28-2 [17.6 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libsub-identify-perl arm64 0.14-3+b3 [11.2 kB] Get: 193 http://deb.debian.org/debian unstable/main arm64 libsub-name-perl arm64 0.28-1 [12.1 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.16.0-1 [23.8 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.17.0~rc3-1 [362 kB] Get: 197 http://deb.debian.org/debian unstable/main arm64 libwww-curl-perl arm64 4.17-12 [57.7 kB] Get: 198 http://deb.debian.org/debian unstable/main arm64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 dh-r all 20250812 [42.6 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 gcc-14-base arm64 14.3.0-10 [52.4 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 libgcc-14-dev arm64 14.3.0-10 [2366 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 libstdc++-14-dev arm64 14.3.0-10 [2568 kB] Get: 208 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5 [10.6 MB] Get: 209 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 210 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 212 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 libnghttp3-dev arm64 1.12.0-1 [91.6 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl-dev arm64 1.16.0-1 [27.6 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 libngtcp2-dev arm64 1.16.0-1 [183 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.24.1-2 [560 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.10-3 [456 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.10-3 [455 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.9-2 [220 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10.2-1 [1319 kB] Get: 228 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.10-3 [1414 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.5.4-1 [3377 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libcurl4-openssl-dev arm64 8.17.0~rc3-1 [505 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocgenerics all 0.52.0-2 [627 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 r-bioc-biobase arm64 2.66.0-2 [2316 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4vectors arm64 0.44.0+dfsg-2 [2056 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocio all 1.16.0+dfsg-2 [210 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 r-cran-formatr all 1.14-2 [152 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get: 240 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 r-cran-bh all 1.84.0-1 [5912 B] Get: 244 http://deb.debian.org/debian unstable/main arm64 r-cran-cpp11 all 0.5.2-1 [226 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocparallel arm64 1.40.0-2 [1321 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 r-bioc-iranges arm64 2.40.1-3 [2307 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [9968 B] Get: 248 http://deb.debian.org/debian unstable/main arm64 r-bioc-xvector arm64 0.46.0-2 [618 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 r-cran-curl arm64 7.0.0+dfsg-1 [199 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 r-cran-jsonlite arm64 1.9.1+dfsg-1 [443 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 r-cran-mime arm64 0.12-2+b1 [36.1 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 r-cran-sys arm64 3.4.3-1 [44.2 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 r-cran-askpass arm64 1.2.1-1 [24.4 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 r-cran-openssl arm64 2.3.2+dfsg-1 [400 kB] Get: 255 http://deb.debian.org/debian unstable/main arm64 r-cran-r6 all 2.6.1-1 [106 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.3 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] Get: 259 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3848 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 r-cran-crayon all 1.5.3-1 [165 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 r-bioc-biostrings arm64 2.74.1+dfsg-2 [13.4 MB] Get: 262 http://deb.debian.org/debian unstable/main arm64 r-cran-lattice arm64 0.22-7-1 [1418 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 r-cran-matrix arm64 1.7-4-1 [4031 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 r-cran-matrixstats arm64 1.5.0-1 [485 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 r-bioc-matrixgenerics all 1.18.1-1 [449 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 r-cran-abind all 1.4-8-1 [68.1 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4arrays arm64 1.6.0+dfsg-2 [701 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 r-bioc-sparsearray arm64 1.6.2+dfsg-2 [1362 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 r-bioc-delayedarray arm64 0.32.0+dfsg-2 [2076 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicranges arm64 1.58.0+dfsg-2 [2092 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1116 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 r-cran-bitops arm64 1.0-9-1 [30.7 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 r-bioc-rhtslib arm64 3.2.0+dfsg-2 [1311 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 r-bioc-rsamtools arm64 2.22.0+dfsg-2 [3565 kB] Get: 275 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicalignments arm64 1.42.0-2 [2160 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 r-cran-rcurl arm64 1.98-1.16+dfsg-1 [798 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 r-cran-xml arm64 3.99-0.19-1 [1763 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 r-cran-rjson arm64 0.2.23-1 [99.0 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 r-cran-yaml arm64 2.3.10-1 [103 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 r-cran-restfulr arm64 0.0.15-1+b1 [389 kB] Fetched 197 MB in 3s (68.4 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 19964 files and directories currently installed.) Preparing to unpack .../000-libexpat1_2.7.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.3-1) ... Selecting previously unselected package tzdata. Preparing to unpack .../001-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-9_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-9_arm64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package readline-common. Preparing to unpack .../004-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.5.4-1_arm64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../009-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../012-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../015-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../016-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package libtext-charwidth-perl:arm64. Preparing to unpack .../017-libtext-charwidth-perl_0.04-11+b4_arm64.deb ... Unpacking libtext-charwidth-perl:arm64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../018-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../019-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../020-architecture-properties_0.2.6_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.6) ... Selecting previously unselected package m4. Preparing to unpack .../021-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../022-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../023-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../024-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../025-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../026-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... Selecting previously unselected package comerr-dev:arm64. Preparing to unpack .../027-comerr-dev_2.1-1.47.2-3+b3_arm64.deb ... Unpacking comerr-dev:arm64 (2.1-1.47.2-3+b3) ... Selecting previously unselected package dctrl-tools. Preparing to unpack .../028-dctrl-tools_2.24-3+b1_arm64.deb ... Unpacking dctrl-tools (2.24-3+b1) ... Selecting previously unselected package libdebhelper-perl. Preparing to unpack .../029-libdebhelper-perl_13.28_all.deb ... Unpacking libdebhelper-perl (13.28) ... Selecting previously unselected package libtool. Preparing to unpack .../030-libtool_2.5.4-7_all.deb ... Unpacking libtool (2.5.4-7) ... Selecting previously unselected package dh-autoreconf. Preparing to unpack .../031-dh-autoreconf_21_all.deb ... Unpacking dh-autoreconf (21) ... Selecting previously unselected package libarchive-zip-perl. Preparing to unpack .../032-libarchive-zip-perl_1.68-1_all.deb ... Unpacking libarchive-zip-perl (1.68-1) ... 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libtcl8.6:arm64. Preparing to unpack .../105-libtcl8.6_8.6.17+dfsg-1_arm64.deb ... Unpacking libtcl8.6:arm64 (8.6.17+dfsg-1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../106-libjbig0_2.1-6.1+b2_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b2) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../107-liblerc4_4.0.0+ds-5_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-5) ... Selecting previously unselected package libsharpyuv0:arm64. Preparing to unpack .../108-libsharpyuv0_1.5.0-0.1_arm64.deb ... Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../109-libwebp7_1.5.0-0.1_arm64.deb ... Unpacking libwebp7:arm64 (1.5.0-0.1) ... Selecting previously unselected package libtiff6:arm64. Preparing to unpack .../110-libtiff6_4.7.1-1_arm64.deb ... Unpacking libtiff6:arm64 (4.7.1-1) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../111-libtirpc-common_1.3.6+ds-1_all.deb ... Unpacking libtirpc-common (1.3.6+ds-1) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../112-libtirpc3t64_1.3.6+ds-1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.6+ds-1) ... Selecting previously unselected package libxft2:arm64. Preparing to unpack .../113-libxft2_2.3.6-1+b4_arm64.deb ... Unpacking libxft2:arm64 (2.3.6-1+b4) ... Selecting previously unselected package x11-common. Preparing to unpack .../114-x11-common_1%3a7.7+26_all.deb ... Unpacking x11-common (1:7.7+26) ... Selecting previously unselected package libxss1:arm64. Preparing to unpack .../115-libxss1_1%3a1.2.3-1+b3_arm64.deb ... Unpacking libxss1:arm64 (1:1.2.3-1+b3) ... Selecting previously unselected package libtk8.6:arm64. Preparing to unpack .../116-libtk8.6_8.6.17-1_arm64.deb ... Unpacking libtk8.6:arm64 (8.6.17-1) ... Selecting previously unselected package libice6:arm64. 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Setting up libblas3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so.3 to provide /usr/lib/aarch64-linux-gnu/libblas.so.3 (libblas.so.3-aarch64-linux-gnu) in auto mode Setting up libunbound8:arm64 (1.24.1-2) ... Setting up libpkgconf3:arm64 (1.8.1-4) ... Setting up libgmpxx4ldbl:arm64 (2:6.3.0+dfsg-5) ... Setting up libalgorithm-c3-perl (0.11-2) ... Setting up libjpeg62-turbo:arm64 (1:2.1.5-4) ... Setting up libswitch-perl (2.17-3) ... Setting up libx11-data (2:1.8.12-1) ... Setting up libjpeg62-turbo-dev:arm64 (1:2.1.5-4) ... Setting up libncurses6:arm64 (6.5+20250216-2) ... Setting up libfribidi0:arm64 (1.0.16-3) ... Setting up libproc2-0:arm64 (2:4.0.4-9) ... Setting up comerr-dev:arm64 (2.1-1.47.2-3+b3) ... Setting up libunistring5:arm64 (1.3-2) ... Setting up fonts-dejavu-mono (2.37-8) ... Setting up libssl-dev:arm64 (3.5.4-1) ... Setting up libpng16-16t64:arm64 (1.6.50-1) ... Setting up libvariable-magic-perl (0.64-1+b1) ... 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Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up liburi-perl (5.34-2) ... Setting up libxmuu1:arm64 (2:1.1.3-3+b4) ... Setting up libbrotli-dev:arm64 (1.1.0-2+b7) ... Setting up libblas-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libice6:arm64 (2:1.1.1-1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up liblapack3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libboost1.83-dev:arm64 (1.83.0-5) ... Setting up libncurses-dev:arm64 (6.5+20250216-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-5) ... Setting up libpcre2-dev:arm64 (10.46-1) ... Setting up nettle-dev:arm64 (3.10.2-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-7) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libpng-dev:arm64 (1.6.50-1) ... Setting up libjpeg-dev:arm64 (1:2.1.5-4) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up libpaper-utils (2.2.5-0.3+b2) ... Setting up libclass-c3-perl (0.35-2) ... Setting up libngtcp2-dev:arm64 (1.16.0-1) ... Setting up libdevel-callchecker-perl:arm64 (0.009-2) ... Setting up libgfortran-15-dev:arm64 (15.2.0-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.86.1-1) ... No schema files found: doing nothing. Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up gfortran-15-aarch64-linux-gnu (15.2.0-7) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.9-2) ... Setting up liblapack-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up icu-devtools (76.1-4) ... Setting up ucf (3.0052) ... Setting up libssh2-1-dev:arm64 (1.11.1-1) ... Setting up libidn2-dev:arm64 (2.3.8-4) ... Setting up libngtcp2-crypto-ossl0:arm64 (1.16.0-1) ... Setting up libngtcp2-crypto-ossl-dev:arm64 (1.16.0-1) ... Setting up libreadline8t64:arm64 (8.3-3) ... Setting up dh-strip-nondeterminism (1.15.0-1) ... Setting up xauth (1:1.1.2-1.1) ... Setting up groff-base (1.23.0-9) ... Setting up libharfbuzz0b:arm64 (12.1.0-1) ... Setting up gfortran-aarch64-linux-gnu (4:15.2.0-4) ... Setting up libboost-dev:arm64 (1.83.0.2+b2) ... Setting up libxss1:arm64 (1:1.2.3-1+b3) ... Setting up libfontconfig1:arm64 (2.15.0-2.4) ... Setting up libmro-compat-perl (0.15-2) ... Setting up libsm6:arm64 (2:1.2.6-1) ... Setting up libicu-dev:arm64 (76.1-4) ... Setting up libp11-kit-dev:arm64 (0.25.9-2) ... Setting up gfortran-15 (15.2.0-7) ... Setting up libsub-exporter-perl (0.990-1) ... Setting up libhttp-message-perl (7.01-1) ... Setting up libeval-closure-perl (0.14-3) ... Setting up libgnutls30t64:arm64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.10-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up libtirpc3t64:arm64 (1.3.6+ds-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.17-1) ... Setting up libparams-classify-perl:arm64 (0.015-2+b4) ... Setting up libpango-1.0-0:arm64 (1.56.3-2) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libreadline-dev:arm64 (8.3-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran (4:15.2.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:arm64 (1.18.4-1+b1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up libtirpc-dev:arm64 (1.3.6+ds-1) ... Setting up libgnutls-dane0t64:arm64 (3.8.10-3) ... Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:arm64 (1.21.3-5) ... Setting up libxt6t64:arm64 (1:1.2.1-1.3) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libpangoft2-1.0-0:arm64 (1.56.3-2) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.16.0-1) ... Setting up libpangocairo-1.0-0:arm64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up libgnutls28-dev:arm64 (3.8.10-3) ... Setting up libcurl4t64:arm64 (8.17.0~rc3-1) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libcurl3t64-gnutls:arm64 (8.17.0~rc3-1) ... Setting up libwww-curl-perl:arm64 (4.17-12) ... Setting up debhelper (13.28) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libclass-load-perl (0.25-2) ... Setting up r-base-core (4.5.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.3-1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.22-7-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up r-cran-xml (3.99-0.19-1) ... Setting up libpackage-deprecationmanager-perl (0.18-1) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libdevel-overloadinfo-perl (0.008-1) ... Setting up libclass-load-xs-perl (0.10-2+b4) ... Setting up r-cran-rjson (0.2.23-1) ... Setting up r-cran-r6 (2.6.1-1) ... Setting up libb-hooks-endofscope-perl (0.28-2) ... Setting up r-bioc-genomeinfodbdata (1.2.13-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-curl (7.0.0+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-bioc-biocgenerics (0.52.0-2) ... Setting up r-cran-matrixstats (1.5.0-1) ... Setting up r-base-dev (4.5.2-1) ... Setting up r-bioc-matrixgenerics (1.18.1-1) ... Setting up r-cran-sys (3.4.3-1) ... Setting up r-cran-mime (0.12-2+b1) ... Setting up libmoose-perl:arm64 (2.4000-1) ... Setting up r-cran-abind (1.4-8-1) ... Setting up r-cran-yaml (2.3.10-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-cran-bitops (1.0-9-1) ... Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ... Setting up r-cran-askpass (1.2.1-1) ... Setting up r-bioc-biobase (2.66.0-2) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... Setting up libcurl4-openssl-dev:arm64 (8.17.0~rc3-1) ... Setting up r-cran-cpp11 (0.5.2-1) ... Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-cran-matrix (1.7-4-1) ... Setting up r-bioc-iranges (2.40.1-3) ... Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... Setting up r-cran-restfulr (0.0.15-1+b1) ... Setting up r-cran-openssl (2.3.2+dfsg-1) ... Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... Setting up r-bioc-biocparallel (1.40.0-2) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... Setting up r-bioc-biocio (1.16.0+dfsg-2) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-bioc-xvector (0.46.0-2) ... Setting up dh-r (20250812) ... Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... Setting up r-bioc-sparsearray (1.6.2+dfsg-2) ... Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... Setting up r-bioc-genomicalignments (1.42.0-2) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: Running cd /build/reproducible-path/r-bioc-rtracklayer-1.66.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../r-bioc-rtracklayer_1.66.0-3_source.changes dpkg-buildpackage: info: source package r-bioc-rtracklayer dpkg-buildpackage: info: source version 1.66.0-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Rebecca N. Palmer dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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 dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R configure.ac:19: warning: AC_OUTPUT should be used without arguments. configure.ac:19: You should run autoupdate. dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh_auto_test -O--buildsystem=R create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-rtracklayer/ -O--buildsystem=R I: R Package: rtracklayer Version: 1.66.0 I: Building using R version 4.5.2-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Wed, 23 Apr 2025 19:58:02 +0100 mkdir -p /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library R CMD INSTALL -l /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library --clean . --built-timestamp="'Wed, 23 Apr 2025 19:58:02 +0100'" * installing *source* package 'rtracklayer' ... ** this is package 'rtracklayer' version '1.66.0' files 'configure', 'inst/unitTests/test_bed.R', 'src/ucsc/common.c', 'src/ucsc/common.h', 'tests/rtracklayer_unit_tests.R' have the wrong MD5 checksums ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for openssl >= 1.0... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: 'gcc (Debian 15.2.0-7) 15.2.0' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c XVector_stubs.c -o XVector_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c readGFF.c -o readGFF.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bbiHelper.c -o bbiHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigWig.c -o bigWig.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBedHelper.c -o bigBedHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBed.c -o bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chain_io.c -o chain_io.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c twoBit.c -o twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c handlers.c -o handlers.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memgfx.c -o ucsc/memgfx.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/binRange.c -o ucsc/binRange.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlColor.c -o ucsc/htmlColor.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlList.c -o ucsc/sqlList.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/tokenizer.c -o ucsc/tokenizer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/asParse.c -o ucsc/asParse.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/basicBed.c -o ucsc/basicBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bigBed.c -o ucsc/bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/cirTree.c -o ucsc/cirTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/common.c -o ucsc/common.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnautil.c -o ucsc/dnautil.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/errAbort.c -o ucsc/errAbort.o ucsc/errAbort.c: In function 'getThreadVars': ucsc/errAbort.c:255:5: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 255 | write(STDERR_FILENO, errMsg, strlen(errMsg)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hash.c -o ucsc/hash.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/linefile.c -o ucsc/linefile.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/localmem.c -o ucsc/localmem.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/zlibFace.c -o ucsc/zlibFace.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dystring.c -o ucsc/dystring.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/obscure.c -o ucsc/obscure.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/pipeline.c -o ucsc/pipeline.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rbTree.c -o ucsc/rbTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memalloc.c -o ucsc/memalloc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dlist.c -o ucsc/dlist.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/filePath.c -o ucsc/filePath.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlPage.c -o ucsc/htmlPage.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/udc.c -o ucsc/udc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/net.c -o ucsc/net.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bits.c -o ucsc/bits.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/twoBit.c -o ucsc/twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/internet.c -o ucsc/internet.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/https.c -o ucsc/https.o ucsc/https.c: In function 'openSslInit': ucsc/https.c:76:5: warning: 'ERR_load_SSL_strings' is deprecated: Since OpenSSL 3.0 [-Wdeprecated-declarations] 76 | ERR_load_SSL_strings(); | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/openssl/sslerr.h:17, from /usr/include/openssl/ssl.h:44, from ucsc/https.c:8: /usr/include/openssl/sslerr_legacy.h:29:27: note: declared here 29 | OSSL_DEPRECATEDIN_3_0 int ERR_load_SSL_strings(void); | ^~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/base64.c -o ucsc/base64.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/verbose.c -o ucsc/verbose.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/os.c -o ucsc/os.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o rtracklayer.so S4Vectors_stubs.o IRanges_stubs.o XVector_stubs.o R_init_rtracklayer.o readGFF.o bbiHelper.o bigWig.o bigBedHelper.o bigBed.o chain_io.o twoBit.o handlers.o utils.o ucsc/memgfx.o ucsc/binRange.o ucsc/htmlColor.o ucsc/sqlList.o ucsc/tokenizer.o ucsc/asParse.o ucsc/basicBed.o ucsc/bigBed.o ucsc/bPlusTree.o ucsc/bbiRead.o ucsc/bbiWrite.o ucsc/bwgCreate.o ucsc/bwgQuery.o ucsc/cirTree.o ucsc/common.o ucsc/dnaseq.o ucsc/dnautil.o ucsc/errAbort.o ucsc/hash.o ucsc/linefile.o ucsc/localmem.o ucsc/sqlNum.o ucsc/zlibFace.o ucsc/dystring.o ucsc/hmmstats.o ucsc/obscure.o ucsc/pipeline.o ucsc/rangeTree.o ucsc/rbTree.o ucsc/memalloc.o ucsc/dlist.o ucsc/filePath.o ucsc/htmlPage.o ucsc/udc.o ucsc/net.o ucsc/bits.o ucsc/twoBit.o ucsc/_cheapcgi.o ucsc/internet.o ucsc/https.o ucsc/base64.o ucsc/verbose.o ucsc/os.o ucsc/wildcmp.o ucsc/_portimpl.o -lz -pthread -lssl -lcrypto -lcurl -L/usr/lib/R/lib -lR /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcrypto.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' installing to /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/00LOCK-r-bioc-rtracklayer-1.66.0/00new/rtracklayer/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'offset' from package 'stats' in package 'rtracklayer' ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (rtracklayer) rm -f /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/rtracklayer/LICENSE W: Ignoring specified R dependency: R (>= 3.5.0) I: Using r-bioc-genomicranges for Depends:GenomicRanges (>= 1.37.2) I: Using r-bioc-bsgenome for Suggests:BSgenome (>= 1.33.4) W: Cannot find a debian package for Suggests:humanStemCell W: Cannot find a debian package for Suggests:microRNA (>= 1.1.1) I: Using r-bioc-genefilter for Suggests:genefilter I: Using r-bioc-limma for Suggests:limma I: Using r-bioc-org.hs.eg.db for Suggests:org.Hs.eg.db W: Cannot find a debian package for Suggests:hgu133plus2.db I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg19 W: Cannot find a debian package for Suggests:TxDb.Hsapiens.UCSC.hg19.knownGene I: Using r-cran-runit for Suggests:RUnit I: Using r-cran-xml for Imports:XML (>= 1.98-0) I: Using r-bioc-biocgenerics for Imports:BiocGenerics (>= 0.35.3) I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.23.18) I: Using r-bioc-iranges for Imports:IRanges (>= 2.13.13) I: Using r-bioc-xvector for Imports:XVector (>= 0.19.7) I: Using r-bioc-genomeinfodb for Imports:GenomeInfoDb (>= 1.15.2) I: Using r-bioc-biostrings for Imports:Biostrings (>= 2.47.6) I: Using r-bioc-zlibbioc for Imports:zlibbioc I: Using r-cran-curl for Imports:curl I: Using r-cran-httr for Imports:httr I: Using r-bioc-rsamtools for Imports:Rsamtools (>= 1.31.2) I: Using r-bioc-genomicalignments for Imports:GenomicAlignments (>= 1.15.6) I: Using r-bioc-biocio for Imports:BiocIO I: Using r-cran-restfulr for Imports:restfulr (>= 0.0.13) I: Using r-bioc-s4vectors for LinkingTo:S4Vectors I: Using r-bioc-iranges for LinkingTo:IRanges I: Using r-bioc-xvector for LinkingTo:XVector I: BioConductor API version: r-api-bioc-3.20 I: Use r-bioc-rtracklayer as Debian binary package for variables substitution dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-rtracklayer' in '../r-bioc-rtracklayer_1.66.0-3_arm64.deb'. dpkg-deb: building package 'r-bioc-rtracklayer-dbgsym' in '../r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/282570 and its subdirectories I: Current time: Fri Oct 31 21:14:42 -12 2025 I: pbuilder-time-stamp: 1761988482 Sat Nov 1 09:14:45 UTC 2025 I: 1st build successful. Starting 2nd build on remote node codethink03-arm64.debian.net. Sat Nov 1 09:14:45 UTC 2025 I: Preparing to do remote build '2' on codethink03-arm64.debian.net. Sat Nov 1 09:14:45 UTC 2025 - checking /var/lib/jenkins/offline_nodes if codethink03-arm64.debian.net is marked as down. Sat Nov 1 09:14:45 UTC 2025 - checking via ssh if codethink03-arm64.debian.net is up. removed '/tmp/read-only-fs-test-nHCGW5' ==================================================================================== Fri Dec 4 15:37:46 UTC 2026 - running /srv/jenkins/bin/reproducible_build.sh (for job /srv/jenkins/bin/reproducible_build.sh) on codethink03-arm64, called using "2 r-bioc-rtracklayer unstable /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e 1.66.0-3" as arguments. Fri Dec 4 15:37:46 UTC 2026 - actually running "reproducible_build.sh" (md5sum bcb6fe1b50cf4e8eedacd0971a9eb63f) as "/tmp/jenkins-script-02NoJsNj" $ git clone https://salsa.debian.org/qa/jenkins.debian.net.git ; more CONTRIBUTING Fri Dec 4 15:37:46 UTC 2026 I: Downloading source for unstable/r-bioc-rtracklayer=1.66.0-3 Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (dsc) [2460 B] Get:2 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (tar) [4113 kB] Get:3 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (diff) [27.9 kB] Fetched 4143 kB in 0s (79.7 MB/s) Download complete and in download only mode Reading package lists... NOTICE: 'r-bioc-rtracklayer' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git Please use: git clone https://salsa.debian.org/r-pkg-team/r-bioc-rtracklayer.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4143 kB of source archives. Get:1 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (dsc) [2460 B] Get:2 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (tar) [4113 kB] Get:3 http://deb.debian.org/debian unstable/main r-bioc-rtracklayer 1.66.0-3 (diff) [27.9 kB] Fetched 4143 kB in 0s (79.7 MB/s) Download complete and in download only mode ============================================================================= Re-Building r-bioc-rtracklayer in unstable on arm64 on codethink03-arm64 now. Date: Fri Dec 4 15:37:46 GMT 2026 Date UTC: Fri Dec 4 15:37:46 UTC 2026 ============================================================================= ++ mktemp -t pbuilderrc_XXXX --tmpdir=/srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e + local TMPCFG=/srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_KPJ4 + case ${ARCH} in + case $ARCH in + locale=nl_BE + language=nl + case "${SUITE}" in + reproducible_buildflags=+all + extra_deb_build_options= + case "${SRCPACKAGE}" in + cat + echo BUILDDIR=/build/reproducible-path + '[' r-bioc-rtracklayer = debian-installer -o r-bioc-rtracklayer = debian-installer-netboot-images ']' + pbuilder_options=() + local pbuilder_options + DEBBUILDOPTS=-b + BINARYTARGET= + '[' r-bioc-rtracklayer = u-boot ']' + case "${SRCPACKAGE}" in + PBUILDERTIMEOUT=24 + local PRESULT=0 + sudo timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_KPJ4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2 --logfile b2/build.log r-bioc-rtracklayer_1.66.0-3.dsc W: /root/.pbuilderrc does not exist I: Logging to b2/build.log I: pbuilder: network access will be disabled during build I: Current time: Sat Dec 5 05:37:46 +14 2026 I: pbuilder-time-stamp: 1796398666 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: Copying source file I: copying [r-bioc-rtracklayer_1.66.0-3.dsc] I: copying [./r-bioc-rtracklayer_1.66.0.orig.tar.gz] I: copying [./r-bioc-rtracklayer_1.66.0-3.debian.tar.xz] I: Extracting source dpkg-source: warning: cannot verify inline signature for ./r-bioc-rtracklayer_1.66.0-3.dsc: no acceptable signature found dpkg-source: info: extracting r-bioc-rtracklayer in r-bioc-rtracklayer-1.66.0 dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0.orig.tar.gz dpkg-source: info: unpacking r-bioc-rtracklayer_1.66.0-3.debian.tar.xz dpkg-source: info: using patch list from debian/patches/series dpkg-source: info: applying delete_configure.patch dpkg-source: info: applying Fix_autopkgtest.patch dpkg-source: info: applying C23compat.patch I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D01_modify_environment starting debug: Running on codethink03-arm64. I: Changing host+domainname to test build reproducibility I: Adding a custom variable just for the fun of it... I: Changing /bin/sh to bash '/bin/sh' -> '/bin/bash' lrwxrwxrwx 1 root root 9 Dec 4 15:37 /bin/sh -> /bin/bash I: Setting pbuilder2's login shell to /bin/bash I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D01_modify_environment finished I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D02_print_environment starting I: set BASH=/bin/sh BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath BASH_ALIASES=() BASH_ARGC=() BASH_ARGV=() BASH_CMDS=() BASH_LINENO=([0]="12" [1]="0") BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") BASH_VERSION='5.3.3(1)-release' BUILDDIR=/build/reproducible-path BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' BUILDUSERNAME=pbuilder2 BUILD_ARCH=arm64 DEBIAN_FRONTEND=noninteractive DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 nocheck' DIRSTACK=() DISTRIBUTION=unstable EUID=0 FUNCNAME=([0]="Echo" [1]="main") GROUPS=() HOME=/root HOSTNAME=i-capture-the-hostname HOSTTYPE=aarch64 HOST_ARCH=arm64 IFS=' ' INVOCATION_ID=d81c8732cbca4c6fa307b8c2e402f877 LANG=C LANGUAGE=nl_BE:nl LC_ALL=C MACHTYPE=aarch64-unknown-linux-gnu MAIL=/var/mail/root OPTERR=1 OPTIND=1 OSTYPE=linux-gnu PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path PBCURRENTCOMMANDLINEOPERATION=build PBUILDER_OPERATION=build PBUILDER_PKGDATADIR=/usr/share/pbuilder PBUILDER_PKGLIBDIR=/usr/lib/pbuilder PBUILDER_SYSCONFDIR=/etc PIPESTATUS=([0]="0") POSIXLY_CORRECT=y PPID=326403 PS4='+ ' PWD=/ SHELL=/bin/bash SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix SHLVL=3 SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_KPJ4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2 --logfile b2/build.log r-bioc-rtracklayer_1.66.0-3.dsc' SUDO_GID=109 SUDO_HOME=/var/lib/jenkins SUDO_UID=104 SUDO_USER=jenkins TERM=unknown TZ=/usr/share/zoneinfo/Etc/GMT-14 UID=0 USER=root _='I: set' http_proxy=http://192.168.101.4:3128 I: uname -a Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: arm64 Maintainer: Debian Pbuilder Team Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder This package was created automatically by pbuilder to satisfy the build-dependencies of the package being currently built. Depends: debhelper-compat (= 13), dh-r, r-base-dev, r-bioc-genomicranges, r-cran-xml, r-bioc-biocgenerics, r-bioc-s4vectors, r-bioc-iranges, r-bioc-xvector, r-bioc-genomeinfodb, r-bioc-biostrings, r-bioc-zlibbioc, r-cran-curl, r-cran-httr, r-bioc-rsamtools, r-bioc-genomicalignments, r-bioc-biocio, r-cran-restfulr, architecture-is-64-bit, libcurl4-openssl-dev dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19964 files and directories currently installed.) Preparing to unpack .../pbuilder-satisfydepends-dummy.deb ... Unpacking pbuilder-satisfydepends-dummy (0.invalid.0) ... dpkg: pbuilder-satisfydepends-dummy: dependency problems, but configuring anyway as you requested: pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however: Package debhelper-compat is not installed. pbuilder-satisfydepends-dummy depends on dh-r; however: Package dh-r is not installed. pbuilder-satisfydepends-dummy depends on r-base-dev; however: Package r-base-dev is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicranges; however: Package r-bioc-genomicranges is not installed. pbuilder-satisfydepends-dummy depends on r-cran-xml; however: Package r-cran-xml is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocgenerics; however: Package r-bioc-biocgenerics is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-s4vectors; however: Package r-bioc-s4vectors is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-iranges; however: Package r-bioc-iranges is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-xvector; however: Package r-bioc-xvector is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomeinfodb; however: Package r-bioc-genomeinfodb is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biostrings; however: Package r-bioc-biostrings is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-zlibbioc; however: Package r-bioc-zlibbioc is not installed. pbuilder-satisfydepends-dummy depends on r-cran-curl; however: Package r-cran-curl is not installed. pbuilder-satisfydepends-dummy depends on r-cran-httr; however: Package r-cran-httr is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rsamtools; however: Package r-bioc-rsamtools is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-genomicalignments; however: Package r-bioc-genomicalignments is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-biocio; however: Package r-bioc-biocio is not installed. pbuilder-satisfydepends-dummy depends on r-cran-restfulr; however: Package r-cran-restfulr is not installed. pbuilder-satisfydepends-dummy depends on architecture-is-64-bit; however: Package architecture-is-64-bit is not installed. pbuilder-satisfydepends-dummy depends on libcurl4-openssl-dev; however: Package libcurl4-openssl-dev is not installed. Setting up pbuilder-satisfydepends-dummy (0.invalid.0) ... Reading package lists... Building dependency tree... Reading state information... Initializing package states... Writing extended state information... Building tag database... pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) pbuilder-satisfydepends-dummy is already installed at the requested version (0.invalid.0) The following NEW packages will be installed: architecture-properties{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} dctrl-tools{a} debhelper{a} dh-autoreconf{a} dh-r{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gcc-14-base{a} gettext{a} gettext-base{a} gfortran{a} gfortran-15{a} gfortran-15-aarch64-linux-gnu{a} gfortran-aarch64-linux-gnu{a} groff-base{a} icu-devtools{a} intltool-debian{a} krb5-multidev{a} libalgorithm-c3-perl{a} libarchive-zip-perl{a} libb-hooks-endofscope-perl{a} libb-hooks-op-check-perl{a} libblas-dev{a} libblas3{a} libboost-dev{a} libboost1.83-dev{a} libbrotli-dev{a} libbrotli1{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-openssl-dev{a} libcurl4t64{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdevel-callchecker-perl{a} libdevel-globaldestruction-perl{a} libdevel-overloadinfo-perl{a} libdevel-stacktrace-perl{a} libdist-checkconflicts-perl{a} libdynaloader-functions-perl{a} libelf1t64{a} libencode-locale-perl{a} libeval-closure-perl{a} libevent-2.1-7t64{a} libexpat1{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgcc-14-dev{a} libgfortran-15-dev{a} libgfortran5{a} libglib2.0-0t64{a} libgmp-dev{a} libgmpxx4ldbl{a} libgnutls-dane0t64{a} libgnutls-openssl27t64{a} libgnutls28-dev{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libgssrpc4t64{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu76{a} libidn2-0{a} libidn2-dev{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack-dev{a} liblapack3{a} libldap-dev{a} libldap2{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libmodule-implementation-perl{a} libmodule-runtime-conflicts-perl{a} libmodule-runtime-perl{a} libmoose-perl{a} libmro-compat-perl{a} libnamespace-clean-perl{a} libncurses-dev{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libngtcp2-crypto-ossl-dev{a} libngtcp2-crypto-ossl0{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpackage-deprecationmanager-perl{a} libpackage-stash-perl{a} libpackage-stash-xs-perl{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper2{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libreadline-dev{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libstdc++-14-dev{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libswitch-perl{a} libtasn1-6{a} libtasn1-6-dev{a} libtcl8.6{a} libtext-charwidth-perl{a} libtext-wrapi18n-perl{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtirpc-common{a} libtirpc-dev{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunbound8{a} libunistring5{a} liburi-perl{a} libvariable-magic-perl{a} libwebp7{a} libwww-curl-perl{a} libwww-curl-simple-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb-render0{a} libxcb-shm0{a} libxcb1{a} libxdmcp6{a} libxext6{a} libxft2{a} libxml2-16{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6t64{a} libzstd-dev{a} m4{a} man-db{a} nettle-dev{a} openssl{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} r-base-core{a} r-base-dev{a} r-bioc-biobase{a} r-bioc-biocgenerics{a} r-bioc-biocio{a} r-bioc-biocparallel{a} r-bioc-biostrings{a} r-bioc-delayedarray{a} r-bioc-genomeinfodb{a} r-bioc-genomeinfodbdata{a} r-bioc-genomicalignments{a} r-bioc-genomicranges{a} r-bioc-iranges{a} r-bioc-matrixgenerics{a} r-bioc-rhtslib{a} r-bioc-rsamtools{a} r-bioc-s4arrays{a} r-bioc-s4vectors{a} r-bioc-sparsearray{a} r-bioc-summarizedexperiment{a} r-bioc-ucsc.utils{a} r-bioc-xvector{a} r-bioc-zlibbioc{a} r-cran-abind{a} r-cran-askpass{a} r-cran-bh{a} r-cran-bitops{a} r-cran-codetools{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-curl{a} r-cran-formatr{a} r-cran-futile.logger{a} r-cran-futile.options{a} r-cran-httr{a} r-cran-jsonlite{a} r-cran-lambda.r{a} r-cran-lattice{a} r-cran-matrix{a} r-cran-matrixstats{a} r-cran-mime{a} r-cran-openssl{a} r-cran-r6{a} r-cran-rcurl{a} r-cran-restfulr{a} r-cran-rjson{a} r-cran-snow{a} r-cran-sys{a} r-cran-xml{a} r-cran-yaml{a} readline-common{a} sensible-utils{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xauth{a} xdg-utils{a} zip{a} zlib1g-dev{a} The following packages are RECOMMENDED but will NOT be installed: bzip2-doc cme curl devscripts git-buildpackage krb5-locales libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libio-compress-brotli-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-cran-base64enc r-cran-bench r-cran-brio r-cran-callr r-cran-cli r-cran-covr r-cran-decor r-cran-desc r-cran-digest r-cran-ggplot2 r-cran-glue r-cran-httpuv r-cran-jpeg r-cran-knitr r-cran-lobstr r-cran-markdown r-cran-microbenchmark r-cran-mockery r-cran-png r-cran-progress r-cran-r.devices r-cran-r.rsp r-cran-rcpp r-cran-readr r-cran-rmarkdown r-cran-rstudioapi r-cran-runit r-cran-scales r-cran-sf r-cran-shiny r-cran-sodium r-cran-spelling r-cran-survival r-cran-testit r-cran-testthat r-cran-tibble r-cran-vctrs r-cran-withr r-cran-xml2 r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 0 packages upgraded, 280 newly installed, 0 to remove and 0 not upgraded. Need to get 197 MB of archives. After unpacking 690 MB will be used. Writing extended state information... Get: 1 http://deb.debian.org/debian unstable/main arm64 libexpat1 arm64 2.7.3-1 [96.5 kB] Get: 2 http://deb.debian.org/debian unstable/main arm64 tzdata all 2025b-5 [260 kB] Get: 3 http://deb.debian.org/debian unstable/main arm64 libproc2-0 arm64 2:4.0.4-9 [62.8 kB] Get: 4 http://deb.debian.org/debian unstable/main arm64 procps arm64 2:4.0.4-9 [871 kB] Get: 5 http://deb.debian.org/debian unstable/main arm64 readline-common all 8.3-3 [74.8 kB] Get: 6 http://deb.debian.org/debian unstable/main arm64 sensible-utils all 0.0.26 [27.0 kB] Get: 7 http://deb.debian.org/debian unstable/main arm64 openssl arm64 3.5.4-1 [1457 kB] Get: 8 http://deb.debian.org/debian unstable/main arm64 ca-certificates all 20250419 [162 kB] Get: 9 http://deb.debian.org/debian unstable/main arm64 libmagic-mgc arm64 1:5.46-5 [338 kB] Get: 10 http://deb.debian.org/debian unstable/main arm64 libmagic1t64 arm64 1:5.46-5 [103 kB] Get: 11 http://deb.debian.org/debian unstable/main arm64 file arm64 1:5.46-5 [43.7 kB] Get: 12 http://deb.debian.org/debian unstable/main arm64 gettext-base arm64 0.23.1-2+b1 [241 kB] Get: 13 http://deb.debian.org/debian unstable/main arm64 libuchardet0 arm64 0.0.8-2 [69.0 kB] Get: 14 http://deb.debian.org/debian unstable/main arm64 groff-base arm64 1.23.0-9 [1130 kB] Get: 15 http://deb.debian.org/debian unstable/main arm64 bsdextrautils arm64 2.41.2-4 [97.3 kB] Get: 16 http://deb.debian.org/debian unstable/main arm64 libpipeline1 arm64 1.5.8-1 [40.2 kB] Get: 17 http://deb.debian.org/debian unstable/main arm64 man-db arm64 2.13.1-1 [1453 kB] Get: 18 http://deb.debian.org/debian unstable/main arm64 libtext-charwidth-perl arm64 0.04-11+b4 [9652 B] Get: 19 http://deb.debian.org/debian unstable/main arm64 libtext-wrapi18n-perl all 0.06-10 [8808 B] Get: 20 http://deb.debian.org/debian unstable/main arm64 ucf all 3.0052 [43.3 kB] Get: 21 http://deb.debian.org/debian unstable/main arm64 architecture-properties arm64 0.2.6 [2336 B] Get: 22 http://deb.debian.org/debian unstable/main arm64 m4 arm64 1.4.20-2 [315 kB] Get: 23 http://deb.debian.org/debian unstable/main arm64 autoconf all 2.72-3.1 [494 kB] Get: 24 http://deb.debian.org/debian unstable/main arm64 autotools-dev all 20240727.1 [60.2 kB] Get: 25 http://deb.debian.org/debian unstable/main arm64 automake all 1:1.18.1-2 [877 kB] Get: 26 http://deb.debian.org/debian unstable/main arm64 autopoint all 0.23.1-2 [770 kB] Get: 27 http://deb.debian.org/debian unstable/main arm64 libcom-err2 arm64 1.47.2-3+b3 [24.9 kB] Get: 28 http://deb.debian.org/debian unstable/main arm64 comerr-dev arm64 2.1-1.47.2-3+b3 [56.9 kB] Get: 29 http://deb.debian.org/debian unstable/main arm64 dctrl-tools arm64 2.24-3+b1 [125 kB] Get: 30 http://deb.debian.org/debian unstable/main arm64 libdebhelper-perl all 13.28 [92.4 kB] Get: 31 http://deb.debian.org/debian unstable/main arm64 libtool all 2.5.4-7 [540 kB] Get: 32 http://deb.debian.org/debian unstable/main arm64 dh-autoreconf all 21 [12.2 kB] Get: 33 http://deb.debian.org/debian unstable/main arm64 libarchive-zip-perl all 1.68-1 [104 kB] Get: 34 http://deb.debian.org/debian unstable/main arm64 libfile-stripnondeterminism-perl all 1.15.0-1 [19.9 kB] Get: 35 http://deb.debian.org/debian unstable/main arm64 dh-strip-nondeterminism all 1.15.0-1 [8812 B] Get: 36 http://deb.debian.org/debian unstable/main arm64 libelf1t64 arm64 0.194-1 [184 kB] Get: 37 http://deb.debian.org/debian unstable/main arm64 dwz arm64 0.16-2 [100 kB] Get: 38 http://deb.debian.org/debian unstable/main arm64 libunistring5 arm64 1.3-2 [453 kB] Get: 39 http://deb.debian.org/debian unstable/main arm64 libxml2-16 arm64 2.15.1+dfsg-0.3 [591 kB] Get: 40 http://deb.debian.org/debian unstable/main arm64 gettext arm64 0.23.1-2+b1 [1612 kB] Get: 41 http://deb.debian.org/debian unstable/main arm64 intltool-debian all 0.35.0+20060710.6 [22.9 kB] Get: 42 http://deb.debian.org/debian unstable/main arm64 po-debconf all 1.0.21+nmu1 [248 kB] Get: 43 http://deb.debian.org/debian unstable/main arm64 debhelper all 13.28 [941 kB] Get: 44 http://deb.debian.org/debian unstable/main arm64 zip arm64 3.0-15 [227 kB] Get: 45 http://deb.debian.org/debian unstable/main arm64 unzip arm64 6.0-29 [163 kB] Get: 46 http://deb.debian.org/debian unstable/main arm64 libpaper2 arm64 2.2.5-0.3+b2 [16.6 kB] Get: 47 http://deb.debian.org/debian unstable/main arm64 libpaper-utils arm64 2.2.5-0.3+b2 [16.4 kB] Get: 48 http://deb.debian.org/debian unstable/main arm64 xdg-utils all 1.2.1-2 [75.8 kB] Get: 49 http://deb.debian.org/debian unstable/main arm64 libblas3 arm64 3.12.1-7 [135 kB] Get: 50 http://deb.debian.org/debian unstable/main arm64 libbrotli1 arm64 1.1.0-2+b7 [308 kB] Get: 51 http://deb.debian.org/debian unstable/main arm64 libpng16-16t64 arm64 1.6.50-1 [275 kB] Get: 52 http://deb.debian.org/debian unstable/main arm64 libfreetype6 arm64 2.13.3+dfsg-1 [422 kB] Get: 53 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-mono all 2.37-8 [489 kB] Get: 54 http://deb.debian.org/debian unstable/main arm64 fonts-dejavu-core all 2.37-8 [840 kB] Get: 55 http://deb.debian.org/debian unstable/main arm64 fontconfig-config arm64 2.15.0-2.4 [318 kB] Get: 56 http://deb.debian.org/debian unstable/main arm64 libfontconfig1 arm64 2.15.0-2.4 [387 kB] Get: 57 http://deb.debian.org/debian unstable/main arm64 libpixman-1-0 arm64 0.46.4-1 [174 kB] Get: 58 http://deb.debian.org/debian unstable/main arm64 libxau6 arm64 1:1.0.11-1 [20.6 kB] Get: 59 http://deb.debian.org/debian unstable/main arm64 libxdmcp6 arm64 1:1.1.5-1 [27.8 kB] Get: 60 http://deb.debian.org/debian unstable/main arm64 libxcb1 arm64 1.17.0-2+b1 [143 kB] Get: 61 http://deb.debian.org/debian unstable/main arm64 libx11-data all 2:1.8.12-1 [343 kB] Get: 62 http://deb.debian.org/debian unstable/main arm64 libx11-6 arm64 2:1.8.12-1 [795 kB] Get: 63 http://deb.debian.org/debian unstable/main arm64 libxcb-render0 arm64 1.17.0-2+b1 [115 kB] Get: 64 http://deb.debian.org/debian unstable/main arm64 libxcb-shm0 arm64 1.17.0-2+b1 [105 kB] Get: 65 http://deb.debian.org/debian unstable/main arm64 libxext6 arm64 2:1.3.4-1+b3 [49.2 kB] Get: 66 http://deb.debian.org/debian unstable/main arm64 libxrender1 arm64 1:0.9.12-1 [27.0 kB] Get: 67 http://deb.debian.org/debian unstable/main arm64 libcairo2 arm64 1.18.4-1+b1 [483 kB] Get: 68 http://deb.debian.org/debian unstable/main arm64 libnghttp3-9 arm64 1.12.0-1 [63.6 kB] Get: 69 http://deb.debian.org/debian unstable/main arm64 libngtcp2-16 arm64 1.16.0-1 [123 kB] Get: 70 http://deb.debian.org/debian unstable/main arm64 libkrb5support0 arm64 1.21.3-5 [32.4 kB] Get: 71 http://deb.debian.org/debian unstable/main arm64 libk5crypto3 arm64 1.21.3-5 [81.2 kB] Get: 72 http://deb.debian.org/debian unstable/main arm64 libkeyutils1 arm64 1.6.3-6 [9716 B] Get: 73 http://deb.debian.org/debian unstable/main arm64 libkrb5-3 arm64 1.21.3-5 [308 kB] Get: 74 http://deb.debian.org/debian unstable/main arm64 libgssapi-krb5-2 arm64 1.21.3-5 [127 kB] Get: 75 http://deb.debian.org/debian unstable/main arm64 libidn2-0 arm64 2.3.8-4 [108 kB] Get: 76 http://deb.debian.org/debian unstable/main arm64 libsasl2-modules-db arm64 2.1.28+dfsg1-10 [19.8 kB] Get: 77 http://deb.debian.org/debian unstable/main arm64 libsasl2-2 arm64 2.1.28+dfsg1-10 [55.0 kB] Get: 78 http://deb.debian.org/debian unstable/main arm64 libldap2 arm64 2.6.10+dfsg-1 [179 kB] Get: 79 http://deb.debian.org/debian unstable/main arm64 libnghttp2-14 arm64 1.64.0-1.1+b1 [71.7 kB] Get: 80 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl0 arm64 1.16.0-1 [25.7 kB] Get: 81 http://deb.debian.org/debian unstable/main arm64 libpsl5t64 arm64 0.21.2-1.1+b1 [57.1 kB] Get: 82 http://deb.debian.org/debian unstable/main arm64 libffi8 arm64 3.5.2-2 [21.5 kB] Get: 83 http://deb.debian.org/debian unstable/main arm64 libp11-kit0 arm64 0.25.9-2 [420 kB] Get: 84 http://deb.debian.org/debian unstable/main arm64 libtasn1-6 arm64 4.20.0-2 [47.3 kB] Get: 85 http://deb.debian.org/debian unstable/main arm64 libgnutls30t64 arm64 3.8.10-3 [1384 kB] Get: 86 http://deb.debian.org/debian unstable/main arm64 librtmp1 arm64 2.4+20151223.gitfa8646d.1-3 [56.3 kB] Get: 87 http://deb.debian.org/debian unstable/main arm64 libssh2-1t64 arm64 1.11.1-1 [235 kB] Get: 88 http://deb.debian.org/debian unstable/main arm64 libcurl4t64 arm64 8.17.0~rc3-1 [370 kB] Get: 89 http://deb.debian.org/debian unstable/main arm64 libdeflate0 arm64 1.23-2 [42.4 kB] Get: 90 http://deb.debian.org/debian unstable/main arm64 libglib2.0-0t64 arm64 2.86.1-1 [1436 kB] Get: 91 http://deb.debian.org/debian unstable/main arm64 libicu76 arm64 76.1-4 [9524 kB] Get: 92 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo arm64 1:2.1.5-4 [173 kB] Get: 93 http://deb.debian.org/debian unstable/main arm64 libgfortran5 arm64 15.2.0-7 [371 kB] Get: 94 http://deb.debian.org/debian unstable/main arm64 liblapack3 arm64 3.12.1-7 [1846 kB] Get: 95 http://deb.debian.org/debian unstable/main arm64 fontconfig arm64 2.15.0-2.4 [463 kB] Get: 96 http://deb.debian.org/debian unstable/main arm64 libfribidi0 arm64 1.0.16-3 [26.5 kB] Get: 97 http://deb.debian.org/debian unstable/main arm64 libgraphite2-3 arm64 1.3.14-11 [70.8 kB] Get: 98 http://deb.debian.org/debian unstable/main arm64 libharfbuzz0b arm64 12.1.0-1 [486 kB] Get: 99 http://deb.debian.org/debian unstable/main arm64 libthai-data all 0.1.29-2 [168 kB] Get: 100 http://deb.debian.org/debian unstable/main arm64 libdatrie1 arm64 0.2.13-4 [37.4 kB] Get: 101 http://deb.debian.org/debian unstable/main arm64 libthai0 arm64 0.1.29-2+b1 [48.4 kB] Get: 102 http://deb.debian.org/debian unstable/main arm64 libpango-1.0-0 arm64 1.56.3-2 [222 kB] Get: 103 http://deb.debian.org/debian unstable/main arm64 libpangoft2-1.0-0 arm64 1.56.3-2 [56.5 kB] Get: 104 http://deb.debian.org/debian unstable/main arm64 libpangocairo-1.0-0 arm64 1.56.3-2 [35.3 kB] Get: 105 http://deb.debian.org/debian unstable/main arm64 libreadline8t64 arm64 8.3-3 [169 kB] Get: 106 http://deb.debian.org/debian unstable/main arm64 libtcl8.6 arm64 8.6.17+dfsg-1 [982 kB] Get: 107 http://deb.debian.org/debian unstable/main arm64 libjbig0 arm64 2.1-6.1+b2 [30.4 kB] Get: 108 http://deb.debian.org/debian unstable/main arm64 liblerc4 arm64 4.0.0+ds-5 [146 kB] Get: 109 http://deb.debian.org/debian unstable/main arm64 libsharpyuv0 arm64 1.5.0-0.1 [114 kB] Get: 110 http://deb.debian.org/debian unstable/main arm64 libwebp7 arm64 1.5.0-0.1 [271 kB] Get: 111 http://deb.debian.org/debian unstable/main arm64 libtiff6 arm64 4.7.1-1 [334 kB] Get: 112 http://deb.debian.org/debian unstable/main arm64 libtirpc-common all 1.3.6+ds-1 [11.0 kB] Get: 113 http://deb.debian.org/debian unstable/main arm64 libtirpc3t64 arm64 1.3.6+ds-1 [79.1 kB] Get: 114 http://deb.debian.org/debian unstable/main arm64 libxft2 arm64 2.3.6-1+b4 [51.6 kB] Get: 115 http://deb.debian.org/debian unstable/main arm64 x11-common all 1:7.7+26 [217 kB] Get: 116 http://deb.debian.org/debian unstable/main arm64 libxss1 arm64 1:1.2.3-1+b3 [17.1 kB] Get: 117 http://deb.debian.org/debian unstable/main arm64 libtk8.6 arm64 8.6.17-1 [740 kB] Get: 118 http://deb.debian.org/debian unstable/main arm64 libice6 arm64 2:1.1.1-1 [62.1 kB] Get: 119 http://deb.debian.org/debian unstable/main arm64 libsm6 arm64 2:1.2.6-1 [36.4 kB] Get: 120 http://deb.debian.org/debian unstable/main arm64 libxt6t64 arm64 1:1.2.1-1.3 [182 kB] Get: 121 http://deb.debian.org/debian unstable/main arm64 r-base-core arm64 4.5.2-1 [28.4 MB] Get: 122 http://deb.debian.org/debian unstable/main arm64 libgfortran-15-dev arm64 15.2.0-7 [411 kB] Get: 123 http://deb.debian.org/debian unstable/main arm64 gfortran-15-aarch64-linux-gnu arm64 15.2.0-7 [10.8 MB] Get: 124 http://deb.debian.org/debian unstable/main arm64 gfortran-15 arm64 15.2.0-7 [18.0 kB] Get: 125 http://deb.debian.org/debian unstable/main arm64 gfortran-aarch64-linux-gnu arm64 4:15.2.0-4 [1280 B] Get: 126 http://deb.debian.org/debian unstable/main arm64 gfortran arm64 4:15.2.0-4 [1428 B] Get: 127 http://deb.debian.org/debian unstable/main arm64 libblas-dev arm64 3.12.1-7 [145 kB] Get: 128 http://deb.debian.org/debian unstable/main arm64 liblapack-dev arm64 3.12.1-7 [3829 kB] Get: 129 http://deb.debian.org/debian unstable/main arm64 libncurses6 arm64 6.5+20250216-2 [96.1 kB] Get: 130 http://deb.debian.org/debian unstable/main arm64 libncurses-dev arm64 6.5+20250216-2 [340 kB] Get: 131 http://deb.debian.org/debian unstable/main arm64 libreadline-dev arm64 8.3-3 [163 kB] Get: 132 http://deb.debian.org/debian unstable/main arm64 libjpeg62-turbo-dev arm64 1:2.1.5-4 [293 kB] Get: 133 http://deb.debian.org/debian unstable/main arm64 libjpeg-dev arm64 1:2.1.5-4 [72.2 kB] Get: 134 http://deb.debian.org/debian unstable/main arm64 libpcre2-16-0 arm64 10.46-1 [247 kB] Get: 135 http://deb.debian.org/debian unstable/main arm64 libpcre2-32-0 arm64 10.46-1 [238 kB] Get: 136 http://deb.debian.org/debian unstable/main arm64 libpcre2-posix3 arm64 10.46-1 [64.1 kB] Get: 137 http://deb.debian.org/debian unstable/main arm64 libpcre2-dev arm64 10.46-1 [750 kB] Get: 138 http://deb.debian.org/debian unstable/main arm64 zlib1g-dev arm64 1:1.3.dfsg+really1.3.1-1+b1 [917 kB] Get: 139 http://deb.debian.org/debian unstable/main arm64 libpng-dev arm64 1.6.50-1 [361 kB] Get: 140 http://deb.debian.org/debian unstable/main arm64 libbz2-dev arm64 1.0.8-6 [31.9 kB] Get: 141 http://deb.debian.org/debian unstable/main arm64 liblzma-dev arm64 5.8.1-2 [344 kB] Get: 142 http://deb.debian.org/debian unstable/main arm64 icu-devtools arm64 76.1-4 [200 kB] Get: 143 http://deb.debian.org/debian unstable/main arm64 libicu-dev arm64 76.1-4 [10.6 MB] Get: 144 http://deb.debian.org/debian unstable/main arm64 libxmuu1 arm64 2:1.1.3-3+b4 [22.0 kB] Get: 145 http://deb.debian.org/debian unstable/main arm64 xauth arm64 1:1.1.2-1.1 [35.4 kB] Get: 146 http://deb.debian.org/debian unstable/main arm64 libpkgconf3 arm64 1.8.1-4 [35.3 kB] Get: 147 http://deb.debian.org/debian unstable/main arm64 pkgconf-bin arm64 1.8.1-4 [29.6 kB] Get: 148 http://deb.debian.org/debian unstable/main arm64 pkgconf arm64 1.8.1-4 [26.1 kB] Get: 149 http://deb.debian.org/debian unstable/main arm64 libtirpc-dev arm64 1.3.6+ds-1 [192 kB] Get: 150 http://deb.debian.org/debian unstable/main arm64 libdeflate-dev arm64 1.23-2 [51.3 kB] Get: 151 http://deb.debian.org/debian unstable/main arm64 libzstd-dev arm64 1.5.7+dfsg-2 [330 kB] Get: 152 http://deb.debian.org/debian unstable/main arm64 r-base-dev all 4.5.2-1 [2040 B] Get: 153 http://deb.debian.org/debian unstable/main arm64 libfile-which-perl all 1.27-2 [15.1 kB] Get: 154 http://deb.debian.org/debian unstable/main arm64 libswitch-perl all 2.17-3 [20.3 kB] Get: 155 http://deb.debian.org/debian unstable/main arm64 libclone-perl arm64 0.47-1+b1 [13.7 kB] Get: 156 http://deb.debian.org/debian unstable/main arm64 libencode-locale-perl all 1.05-3 [12.9 kB] Get: 157 http://deb.debian.org/debian unstable/main arm64 libtimedate-perl all 2.3300-2 [39.3 kB] Get: 158 http://deb.debian.org/debian unstable/main arm64 libhttp-date-perl all 6.06-1 [10.7 kB] Get: 159 http://deb.debian.org/debian unstable/main arm64 libio-html-perl all 1.004-3 [16.2 kB] Get: 160 http://deb.debian.org/debian unstable/main arm64 liblwp-mediatypes-perl all 6.04-2 [20.2 kB] Get: 161 http://deb.debian.org/debian unstable/main arm64 liburi-perl all 5.34-2 [111 kB] Get: 162 http://deb.debian.org/debian unstable/main arm64 libhttp-message-perl all 7.01-1 [80.0 kB] Get: 163 http://deb.debian.org/debian unstable/main arm64 libparams-util-perl arm64 1.102-3+b1 [23.7 kB] Get: 164 http://deb.debian.org/debian unstable/main arm64 libsub-install-perl all 0.929-1 [10.5 kB] Get: 165 http://deb.debian.org/debian unstable/main arm64 libdata-optlist-perl all 0.114-1 [10.6 kB] Get: 166 http://deb.debian.org/debian unstable/main arm64 libb-hooks-op-check-perl arm64 0.22-3+b2 [10.6 kB] Get: 167 http://deb.debian.org/debian unstable/main arm64 libdynaloader-functions-perl all 0.004-2 [12.2 kB] Get: 168 http://deb.debian.org/debian unstable/main arm64 libdevel-callchecker-perl arm64 0.009-2 [15.7 kB] Get: 169 http://deb.debian.org/debian unstable/main arm64 libparams-classify-perl arm64 0.015-2+b4 [22.3 kB] Get: 170 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-perl all 0.018-1 [17.8 kB] Get: 171 http://deb.debian.org/debian unstable/main arm64 libtry-tiny-perl all 0.32-1 [22.9 kB] Get: 172 http://deb.debian.org/debian unstable/main arm64 libmodule-implementation-perl all 0.09-2 [12.6 kB] Get: 173 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-perl all 0.40-1 [22.0 kB] Get: 174 http://deb.debian.org/debian unstable/main arm64 libclass-load-perl all 0.25-2 [15.3 kB] Get: 175 http://deb.debian.org/debian unstable/main arm64 libclass-load-xs-perl arm64 0.10-2+b4 [14.3 kB] Get: 176 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-progressive-perl all 0.001013-3 [7496 B] Get: 177 http://deb.debian.org/debian unstable/main arm64 libdevel-globaldestruction-perl all 0.14-4 [7144 B] Get: 178 http://deb.debian.org/debian unstable/main arm64 libalgorithm-c3-perl all 0.11-2 [10.8 kB] Get: 179 http://deb.debian.org/debian unstable/main arm64 libclass-c3-perl all 0.35-2 [21.0 kB] Get: 180 http://deb.debian.org/debian unstable/main arm64 libmro-compat-perl all 0.15-2 [11.8 kB] Get: 181 http://deb.debian.org/debian unstable/main arm64 libdevel-overloadinfo-perl all 0.008-1 [7748 B] Get: 182 http://deb.debian.org/debian unstable/main arm64 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB] Get: 183 http://deb.debian.org/debian unstable/main arm64 libsub-exporter-perl all 0.990-1 [50.6 kB] Get: 184 http://deb.debian.org/debian unstable/main arm64 libeval-closure-perl all 0.14-3 [11.2 kB] Get: 185 http://deb.debian.org/debian unstable/main arm64 libdist-checkconflicts-perl all 0.11-2 [10.5 kB] Get: 186 http://deb.debian.org/debian unstable/main arm64 libmodule-runtime-conflicts-perl all 0.003-2 [7356 B] Get: 187 http://deb.debian.org/debian unstable/main arm64 libpackage-deprecationmanager-perl all 0.18-1 [17.6 kB] Get: 188 http://deb.debian.org/debian unstable/main arm64 libpackage-stash-xs-perl arm64 0.30-1+b4 [19.0 kB] Get: 189 http://deb.debian.org/debian unstable/main arm64 libmoose-perl arm64 2.4000-1 [766 kB] Get: 190 http://deb.debian.org/debian unstable/main arm64 libvariable-magic-perl arm64 0.64-1+b1 [43.9 kB] Get: 191 http://deb.debian.org/debian unstable/main arm64 libb-hooks-endofscope-perl all 0.28-2 [17.6 kB] Get: 192 http://deb.debian.org/debian unstable/main arm64 libsub-identify-perl arm64 0.14-3+b3 [11.2 kB] Get: 193 http://deb.debian.org/debian unstable/main arm64 libsub-name-perl arm64 0.28-1 [12.1 kB] Get: 194 http://deb.debian.org/debian unstable/main arm64 libnamespace-clean-perl all 0.27-2 [17.8 kB] Get: 195 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-gnutls8 arm64 1.16.0-1 [23.8 kB] Get: 196 http://deb.debian.org/debian unstable/main arm64 libcurl3t64-gnutls arm64 8.17.0~rc3-1 [362 kB] Get: 197 http://deb.debian.org/debian unstable/main arm64 libwww-curl-perl arm64 4.17-12 [57.7 kB] Get: 198 http://deb.debian.org/debian unstable/main arm64 libwww-curl-simple-perl all 0.100191-3 [12.6 kB] Get: 199 http://deb.debian.org/debian unstable/main arm64 dh-r all 20250812 [42.6 kB] Get: 200 http://deb.debian.org/debian unstable/main arm64 gcc-14-base arm64 14.3.0-10 [52.4 kB] Get: 201 http://deb.debian.org/debian unstable/main arm64 libgssrpc4t64 arm64 1.21.3-5 [57.2 kB] Get: 202 http://deb.debian.org/debian unstable/main arm64 libkadm5clnt-mit12 arm64 1.21.3-5 [41.1 kB] Get: 203 http://deb.debian.org/debian unstable/main arm64 libkdb5-10t64 arm64 1.21.3-5 [41.3 kB] Get: 204 http://deb.debian.org/debian unstable/main arm64 libkadm5srv-mit12 arm64 1.21.3-5 [53.0 kB] Get: 205 http://deb.debian.org/debian unstable/main arm64 krb5-multidev arm64 1.21.3-5 [126 kB] Get: 206 http://deb.debian.org/debian unstable/main arm64 libgcc-14-dev arm64 14.3.0-10 [2366 kB] Get: 207 http://deb.debian.org/debian unstable/main arm64 libstdc++-14-dev arm64 14.3.0-10 [2568 kB] Get: 208 http://deb.debian.org/debian unstable/main arm64 libboost1.83-dev arm64 1.83.0-5 [10.6 MB] Get: 209 http://deb.debian.org/debian unstable/main arm64 libboost-dev arm64 1.83.0.2+b2 [3828 B] Get: 210 http://deb.debian.org/debian unstable/main arm64 libbrotli-dev arm64 1.1.0-2+b7 [308 kB] Get: 211 http://deb.debian.org/debian unstable/main arm64 libidn2-dev arm64 2.3.8-4 [102 kB] Get: 212 http://deb.debian.org/debian unstable/main arm64 libkrb5-dev arm64 1.21.3-5 [16.1 kB] Get: 213 http://deb.debian.org/debian unstable/main arm64 libldap-dev arm64 2.6.10+dfsg-1 [305 kB] Get: 214 http://deb.debian.org/debian unstable/main arm64 libnghttp2-dev arm64 1.64.0-1.1+b1 [112 kB] Get: 215 http://deb.debian.org/debian unstable/main arm64 libnghttp3-dev arm64 1.12.0-1 [91.6 kB] Get: 216 http://deb.debian.org/debian unstable/main arm64 libngtcp2-crypto-ossl-dev arm64 1.16.0-1 [27.6 kB] Get: 217 http://deb.debian.org/debian unstable/main arm64 libngtcp2-dev arm64 1.16.0-1 [183 kB] Get: 218 http://deb.debian.org/debian unstable/main arm64 libpsl-dev arm64 0.21.2-1.1+b1 [77.9 kB] Get: 219 http://deb.debian.org/debian unstable/main arm64 libgmpxx4ldbl arm64 2:6.3.0+dfsg-5 [329 kB] Get: 220 http://deb.debian.org/debian unstable/main arm64 libgmp-dev arm64 2:6.3.0+dfsg-5 [621 kB] Get: 221 http://deb.debian.org/debian unstable/main arm64 libevent-2.1-7t64 arm64 2.1.12-stable-10+b1 [170 kB] Get: 222 http://deb.debian.org/debian unstable/main arm64 libunbound8 arm64 1.24.1-2 [560 kB] Get: 223 http://deb.debian.org/debian unstable/main arm64 libgnutls-dane0t64 arm64 3.8.10-3 [456 kB] Get: 224 http://deb.debian.org/debian unstable/main arm64 libgnutls-openssl27t64 arm64 3.8.10-3 [455 kB] Get: 225 http://deb.debian.org/debian unstable/main arm64 libp11-kit-dev arm64 0.25.9-2 [220 kB] Get: 226 http://deb.debian.org/debian unstable/main arm64 libtasn1-6-dev arm64 4.20.0-2 [96.7 kB] Get: 227 http://deb.debian.org/debian unstable/main arm64 nettle-dev arm64 3.10.2-1 [1319 kB] Get: 228 http://deb.debian.org/debian unstable/main arm64 libgnutls28-dev arm64 3.8.10-3 [1414 kB] Get: 229 http://deb.debian.org/debian unstable/main arm64 librtmp-dev arm64 2.4+20151223.gitfa8646d.1-3 [173 kB] Get: 230 http://deb.debian.org/debian unstable/main arm64 libssl-dev arm64 3.5.4-1 [3377 kB] Get: 231 http://deb.debian.org/debian unstable/main arm64 libssh2-1-dev arm64 1.11.1-1 [388 kB] Get: 232 http://deb.debian.org/debian unstable/main arm64 libcurl4-openssl-dev arm64 8.17.0~rc3-1 [505 kB] Get: 233 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocgenerics all 0.52.0-2 [627 kB] Get: 234 http://deb.debian.org/debian unstable/main arm64 r-bioc-biobase arm64 2.66.0-2 [2316 kB] Get: 235 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4vectors arm64 0.44.0+dfsg-2 [2056 kB] Get: 236 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocio all 1.16.0+dfsg-2 [210 kB] Get: 237 http://deb.debian.org/debian unstable/main arm64 r-cran-formatr all 1.14-2 [152 kB] Get: 238 http://deb.debian.org/debian unstable/main arm64 r-cran-lambda.r all 1.2.4-2 [118 kB] Get: 239 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.options all 1.0.1-3 [20.0 kB] Get: 240 http://deb.debian.org/debian unstable/main arm64 r-cran-futile.logger all 1.4.3-4 [98.4 kB] Get: 241 http://deb.debian.org/debian unstable/main arm64 r-cran-snow all 1:0.4.4-2 [98.9 kB] Get: 242 http://deb.debian.org/debian unstable/main arm64 r-cran-codetools all 0.2-20-1 [91.1 kB] Get: 243 http://deb.debian.org/debian unstable/main arm64 r-cran-bh all 1.84.0-1 [5912 B] Get: 244 http://deb.debian.org/debian unstable/main arm64 r-cran-cpp11 all 0.5.2-1 [226 kB] Get: 245 http://deb.debian.org/debian unstable/main arm64 r-bioc-biocparallel arm64 1.40.0-2 [1321 kB] Get: 246 http://deb.debian.org/debian unstable/main arm64 r-bioc-iranges arm64 2.40.1-3 [2307 kB] Get: 247 http://deb.debian.org/debian unstable/main arm64 r-bioc-zlibbioc all 1.52.0+dfsg-2 [9968 B] Get: 248 http://deb.debian.org/debian unstable/main arm64 r-bioc-xvector arm64 0.46.0-2 [618 kB] Get: 249 http://deb.debian.org/debian unstable/main arm64 r-cran-curl arm64 7.0.0+dfsg-1 [199 kB] Get: 250 http://deb.debian.org/debian unstable/main arm64 r-cran-jsonlite arm64 1.9.1+dfsg-1 [443 kB] Get: 251 http://deb.debian.org/debian unstable/main arm64 r-cran-mime arm64 0.12-2+b1 [36.1 kB] Get: 252 http://deb.debian.org/debian unstable/main arm64 r-cran-sys arm64 3.4.3-1 [44.2 kB] Get: 253 http://deb.debian.org/debian unstable/main arm64 r-cran-askpass arm64 1.2.1-1 [24.4 kB] Get: 254 http://deb.debian.org/debian unstable/main arm64 r-cran-openssl arm64 2.3.2+dfsg-1 [400 kB] Get: 255 http://deb.debian.org/debian unstable/main arm64 r-cran-r6 all 2.6.1-1 [106 kB] Get: 256 http://deb.debian.org/debian unstable/main arm64 r-cran-httr all 1.4.7+dfsg-1 [459 kB] Get: 257 http://deb.debian.org/debian unstable/main arm64 r-bioc-ucsc.utils all 1.2.0+ds-2 [77.3 kB] Get: 258 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodbdata all 1.2.13-2 [12.9 MB] Get: 259 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomeinfodb all 1.42.3+dfsg-1 [3848 kB] Get: 260 http://deb.debian.org/debian unstable/main arm64 r-cran-crayon all 1.5.3-1 [165 kB] Get: 261 http://deb.debian.org/debian unstable/main arm64 r-bioc-biostrings arm64 2.74.1+dfsg-2 [13.4 MB] Get: 262 http://deb.debian.org/debian unstable/main arm64 r-cran-lattice arm64 0.22-7-1 [1418 kB] Get: 263 http://deb.debian.org/debian unstable/main arm64 r-cran-matrix arm64 1.7-4-1 [4031 kB] Get: 264 http://deb.debian.org/debian unstable/main arm64 r-cran-matrixstats arm64 1.5.0-1 [485 kB] Get: 265 http://deb.debian.org/debian unstable/main arm64 r-bioc-matrixgenerics all 1.18.1-1 [449 kB] Get: 266 http://deb.debian.org/debian unstable/main arm64 r-cran-abind all 1.4-8-1 [68.1 kB] Get: 267 http://deb.debian.org/debian unstable/main arm64 r-bioc-s4arrays arm64 1.6.0+dfsg-2 [701 kB] Get: 268 http://deb.debian.org/debian unstable/main arm64 r-bioc-sparsearray arm64 1.6.2+dfsg-2 [1362 kB] Get: 269 http://deb.debian.org/debian unstable/main arm64 r-bioc-delayedarray arm64 0.32.0+dfsg-2 [2076 kB] Get: 270 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicranges arm64 1.58.0+dfsg-2 [2092 kB] Get: 271 http://deb.debian.org/debian unstable/main arm64 r-bioc-summarizedexperiment all 1.36.0+dfsg-2 [1116 kB] Get: 272 http://deb.debian.org/debian unstable/main arm64 r-cran-bitops arm64 1.0-9-1 [30.7 kB] Get: 273 http://deb.debian.org/debian unstable/main arm64 r-bioc-rhtslib arm64 3.2.0+dfsg-2 [1311 kB] Get: 274 http://deb.debian.org/debian unstable/main arm64 r-bioc-rsamtools arm64 2.22.0+dfsg-2 [3565 kB] Get: 275 http://deb.debian.org/debian unstable/main arm64 r-bioc-genomicalignments arm64 1.42.0-2 [2160 kB] Get: 276 http://deb.debian.org/debian unstable/main arm64 r-cran-rcurl arm64 1.98-1.16+dfsg-1 [798 kB] Get: 277 http://deb.debian.org/debian unstable/main arm64 r-cran-xml arm64 3.99-0.19-1 [1763 kB] Get: 278 http://deb.debian.org/debian unstable/main arm64 r-cran-rjson arm64 0.2.23-1 [99.0 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 r-cran-yaml arm64 2.3.10-1 [103 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 r-cran-restfulr arm64 0.0.15-1+b1 [389 kB] Fetched 197 MB in 1s (244 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 19964 files and directories currently installed.) Preparing to unpack .../000-libexpat1_2.7.3-1_arm64.deb ... Unpacking libexpat1:arm64 (2.7.3-1) ... Selecting previously unselected package tzdata. Preparing to unpack .../001-tzdata_2025b-5_all.deb ... Unpacking tzdata (2025b-5) ... Selecting previously unselected package libproc2-0:arm64. Preparing to unpack .../002-libproc2-0_2%3a4.0.4-9_arm64.deb ... Unpacking libproc2-0:arm64 (2:4.0.4-9) ... Selecting previously unselected package procps. Preparing to unpack .../003-procps_2%3a4.0.4-9_arm64.deb ... Unpacking procps (2:4.0.4-9) ... Selecting previously unselected package readline-common. Preparing to unpack .../004-readline-common_8.3-3_all.deb ... Unpacking readline-common (8.3-3) ... Selecting previously unselected package sensible-utils. Preparing to unpack .../005-sensible-utils_0.0.26_all.deb ... Unpacking sensible-utils (0.0.26) ... Selecting previously unselected package openssl. Preparing to unpack .../006-openssl_3.5.4-1_arm64.deb ... Unpacking openssl (3.5.4-1) ... Selecting previously unselected package ca-certificates. Preparing to unpack .../007-ca-certificates_20250419_all.deb ... Unpacking ca-certificates (20250419) ... Selecting previously unselected package libmagic-mgc. Preparing to unpack .../008-libmagic-mgc_1%3a5.46-5_arm64.deb ... Unpacking libmagic-mgc (1:5.46-5) ... Selecting previously unselected package libmagic1t64:arm64. Preparing to unpack .../009-libmagic1t64_1%3a5.46-5_arm64.deb ... Unpacking libmagic1t64:arm64 (1:5.46-5) ... Selecting previously unselected package file. Preparing to unpack .../010-file_1%3a5.46-5_arm64.deb ... Unpacking file (1:5.46-5) ... Selecting previously unselected package gettext-base. Preparing to unpack .../011-gettext-base_0.23.1-2+b1_arm64.deb ... Unpacking gettext-base (0.23.1-2+b1) ... Selecting previously unselected package libuchardet0:arm64. Preparing to unpack .../012-libuchardet0_0.0.8-2_arm64.deb ... Unpacking libuchardet0:arm64 (0.0.8-2) ... Selecting previously unselected package groff-base. Preparing to unpack .../013-groff-base_1.23.0-9_arm64.deb ... Unpacking groff-base (1.23.0-9) ... Selecting previously unselected package bsdextrautils. Preparing to unpack .../014-bsdextrautils_2.41.2-4_arm64.deb ... Unpacking bsdextrautils (2.41.2-4) ... Selecting previously unselected package libpipeline1:arm64. Preparing to unpack .../015-libpipeline1_1.5.8-1_arm64.deb ... Unpacking libpipeline1:arm64 (1.5.8-1) ... Selecting previously unselected package man-db. Preparing to unpack .../016-man-db_2.13.1-1_arm64.deb ... Unpacking man-db (2.13.1-1) ... Selecting previously unselected package libtext-charwidth-perl:arm64. Preparing to unpack .../017-libtext-charwidth-perl_0.04-11+b4_arm64.deb ... Unpacking libtext-charwidth-perl:arm64 (0.04-11+b4) ... Selecting previously unselected package libtext-wrapi18n-perl. Preparing to unpack .../018-libtext-wrapi18n-perl_0.06-10_all.deb ... Unpacking libtext-wrapi18n-perl (0.06-10) ... Selecting previously unselected package ucf. Preparing to unpack .../019-ucf_3.0052_all.deb ... Moving old data out of the way Unpacking ucf (3.0052) ... Selecting previously unselected package architecture-properties:arm64. Preparing to unpack .../020-architecture-properties_0.2.6_arm64.deb ... Unpacking architecture-properties:arm64 (0.2.6) ... Selecting previously unselected package m4. Preparing to unpack .../021-m4_1.4.20-2_arm64.deb ... Unpacking m4 (1.4.20-2) ... Selecting previously unselected package autoconf. Preparing to unpack .../022-autoconf_2.72-3.1_all.deb ... Unpacking autoconf (2.72-3.1) ... Selecting previously unselected package autotools-dev. Preparing to unpack .../023-autotools-dev_20240727.1_all.deb ... Unpacking autotools-dev (20240727.1) ... Selecting previously unselected package automake. Preparing to unpack .../024-automake_1%3a1.18.1-2_all.deb ... Unpacking automake (1:1.18.1-2) ... Selecting previously unselected package autopoint. Preparing to unpack .../025-autopoint_0.23.1-2_all.deb ... Unpacking autopoint (0.23.1-2) ... Selecting previously unselected package libcom-err2:arm64. Preparing to unpack .../026-libcom-err2_1.47.2-3+b3_arm64.deb ... Unpacking libcom-err2:arm64 (1.47.2-3+b3) ... 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Unpacking libngtcp2-crypto-ossl0:arm64 (1.16.0-1) ... Selecting previously unselected package libpsl5t64:arm64. Preparing to unpack .../080-libpsl5t64_0.21.2-1.1+b1_arm64.deb ... Unpacking libpsl5t64:arm64 (0.21.2-1.1+b1) ... Selecting previously unselected package libffi8:arm64. Preparing to unpack .../081-libffi8_3.5.2-2_arm64.deb ... Unpacking libffi8:arm64 (3.5.2-2) ... Selecting previously unselected package libp11-kit0:arm64. Preparing to unpack .../082-libp11-kit0_0.25.9-2_arm64.deb ... Unpacking libp11-kit0:arm64 (0.25.9-2) ... Selecting previously unselected package libtasn1-6:arm64. Preparing to unpack .../083-libtasn1-6_4.20.0-2_arm64.deb ... Unpacking libtasn1-6:arm64 (4.20.0-2) ... Selecting previously unselected package libgnutls30t64:arm64. Preparing to unpack .../084-libgnutls30t64_3.8.10-3_arm64.deb ... Unpacking libgnutls30t64:arm64 (3.8.10-3) ... Selecting previously unselected package librtmp1:arm64. 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Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8 to /lib/aarch64-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libhistory.so.8.2 to /lib/aarch64-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8 to /lib/aarch64-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64' Adding 'diversion of /lib/aarch64-linux-gnu/libreadline.so.8.2 to /lib/aarch64-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64' Unpacking libreadline8t64:arm64 (8.3-3) ... Selecting previously unselected package libtcl8.6:arm64. Preparing to unpack .../105-libtcl8.6_8.6.17+dfsg-1_arm64.deb ... Unpacking libtcl8.6:arm64 (8.6.17+dfsg-1) ... Selecting previously unselected package libjbig0:arm64. Preparing to unpack .../106-libjbig0_2.1-6.1+b2_arm64.deb ... Unpacking libjbig0:arm64 (2.1-6.1+b2) ... Selecting previously unselected package liblerc4:arm64. Preparing to unpack .../107-liblerc4_4.0.0+ds-5_arm64.deb ... Unpacking liblerc4:arm64 (4.0.0+ds-5) ... Selecting previously unselected package libsharpyuv0:arm64. Preparing to unpack .../108-libsharpyuv0_1.5.0-0.1_arm64.deb ... Unpacking libsharpyuv0:arm64 (1.5.0-0.1) ... Selecting previously unselected package libwebp7:arm64. Preparing to unpack .../109-libwebp7_1.5.0-0.1_arm64.deb ... Unpacking libwebp7:arm64 (1.5.0-0.1) ... Selecting previously unselected package libtiff6:arm64. Preparing to unpack .../110-libtiff6_4.7.1-1_arm64.deb ... Unpacking libtiff6:arm64 (4.7.1-1) ... Selecting previously unselected package libtirpc-common. Preparing to unpack .../111-libtirpc-common_1.3.6+ds-1_all.deb ... Unpacking libtirpc-common (1.3.6+ds-1) ... Selecting previously unselected package libtirpc3t64:arm64. Preparing to unpack .../112-libtirpc3t64_1.3.6+ds-1_arm64.deb ... Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3 to /lib/aarch64-linux-gnu/libtirpc.so.3.usr-is-merged by libtirpc3t64' Adding 'diversion of /lib/aarch64-linux-gnu/libtirpc.so.3.0.0 to /lib/aarch64-linux-gnu/libtirpc.so.3.0.0.usr-is-merged by libtirpc3t64' Unpacking libtirpc3t64:arm64 (1.3.6+ds-1) ... Selecting previously unselected package libxft2:arm64. Preparing to unpack .../113-libxft2_2.3.6-1+b4_arm64.deb ... Unpacking libxft2:arm64 (2.3.6-1+b4) ... Selecting previously unselected package x11-common. Preparing to unpack .../114-x11-common_1%3a7.7+26_all.deb ... Unpacking x11-common (1:7.7+26) ... Selecting previously unselected package libxss1:arm64. Preparing to unpack .../115-libxss1_1%3a1.2.3-1+b3_arm64.deb ... Unpacking libxss1:arm64 (1:1.2.3-1+b3) ... Selecting previously unselected package libtk8.6:arm64. Preparing to unpack .../116-libtk8.6_8.6.17-1_arm64.deb ... Unpacking libtk8.6:arm64 (8.6.17-1) ... Selecting previously unselected package libice6:arm64. Preparing to unpack .../117-libice6_2%3a1.1.1-1_arm64.deb ... Unpacking libice6:arm64 (2:1.1.1-1) ... Selecting previously unselected package libsm6:arm64. Preparing to unpack .../118-libsm6_2%3a1.2.6-1_arm64.deb ... Unpacking libsm6:arm64 (2:1.2.6-1) ... Selecting previously unselected package libxt6t64:arm64. Preparing to unpack .../119-libxt6t64_1%3a1.2.1-1.3_arm64.deb ... Unpacking libxt6t64:arm64 (1:1.2.1-1.3) ... Selecting previously unselected package r-base-core. Preparing to unpack .../120-r-base-core_4.5.2-1_arm64.deb ... Unpacking r-base-core (4.5.2-1) ... Selecting previously unselected package libgfortran-15-dev:arm64. Preparing to unpack .../121-libgfortran-15-dev_15.2.0-7_arm64.deb ... Unpacking libgfortran-15-dev:arm64 (15.2.0-7) ... Selecting previously unselected package gfortran-15-aarch64-linux-gnu. Preparing to unpack .../122-gfortran-15-aarch64-linux-gnu_15.2.0-7_arm64.deb ... Unpacking gfortran-15-aarch64-linux-gnu (15.2.0-7) ... 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Setting up xdg-utils (1.2.1-2) ... update-alternatives: using /usr/bin/xdg-open to provide /usr/bin/open (open) in auto mode Setting up libldap2:arm64 (2.6.10+dfsg-1) ... Setting up liburi-perl (5.34-2) ... Setting up libxmuu1:arm64 (2:1.1.3-3+b4) ... Setting up libbrotli-dev:arm64 (1.1.0-2+b7) ... Setting up libblas-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/blas/libblas.so to provide /usr/lib/aarch64-linux-gnu/libblas.so (libblas.so-aarch64-linux-gnu) in auto mode Setting up dctrl-tools (2.24-3+b1) ... Setting up libbz2-dev:arm64 (1.0.8-6) ... Setting up automake (1:1.18.1-2) ... update-alternatives: using /usr/bin/automake-1.18 to provide /usr/bin/automake (automake) in auto mode Setting up libfile-stripnondeterminism-perl (1.15.0-1) ... Setting up libice6:arm64 (2:1.1.1-1) ... Setting up libhttp-date-perl (6.06-1) ... Setting up liblapack3:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so.3 to provide /usr/lib/aarch64-linux-gnu/liblapack.so.3 (liblapack.so.3-aarch64-linux-gnu) in auto mode Setting up libboost1.83-dev:arm64 (1.83.0-5) ... Setting up libncurses-dev:arm64 (6.5+20250216-2) ... Setting up gettext (0.23.1-2+b1) ... Setting up libgmp-dev:arm64 (2:6.3.0+dfsg-5) ... Setting up libpcre2-dev:arm64 (10.46-1) ... Setting up nettle-dev:arm64 (3.10.2-1) ... Setting up libxrender1:arm64 (1:0.9.12-1) ... Setting up libtool (2.5.4-7) ... Setting up fontconfig-config (2.15.0-2.4) ... Setting up libpng-dev:arm64 (1.6.50-1) ... Setting up libjpeg-dev:arm64 (1:2.1.5-4) ... Setting up libxext6:arm64 (2:1.3.4-1+b3) ... Setting up libidn2-0:arm64 (2.3.8-4) ... Setting up libpaper-utils (2.2.5-0.3+b2) ... Setting up libclass-c3-perl (0.35-2) ... Setting up libngtcp2-dev:arm64 (1.16.0-1) ... Setting up libdevel-callchecker-perl:arm64 (0.009-2) ... Setting up libgfortran-15-dev:arm64 (15.2.0-7) ... Setting up pkgconf:arm64 (1.8.1-4) ... Setting up intltool-debian (0.35.0+20060710.6) ... Setting up dh-autoreconf (21) ... Setting up libthai0:arm64 (0.1.29-2+b1) ... Setting up ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 150 added, 0 removed; done. Setting up libglib2.0-0t64:arm64 (2.86.1-1) ... No schema files found: doing nothing. Setting up libfreetype6:arm64 (2.13.3+dfsg-1) ... Setting up gfortran-15-aarch64-linux-gnu (15.2.0-7) ... Setting up libldap-dev:arm64 (2.6.10+dfsg-1) ... Setting up libp11-kit0:arm64 (0.25.9-2) ... Setting up liblapack-dev:arm64 (3.12.1-7) ... update-alternatives: using /usr/lib/aarch64-linux-gnu/lapack/liblapack.so to provide /usr/lib/aarch64-linux-gnu/liblapack.so (liblapack.so-aarch64-linux-gnu) in auto mode Setting up libgssapi-krb5-2:arm64 (1.21.3-5) ... Setting up libdata-optlist-perl (0.114-1) ... Setting up icu-devtools (76.1-4) ... Setting up ucf (3.0052) ... 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Setting up libgnutls30t64:arm64 (3.8.10-3) ... Setting up libgnutls-openssl27t64:arm64 (3.8.10-3) ... Setting up libnghttp2-dev:arm64 (1.64.0-1.1+b1) ... Setting up fontconfig (2.15.0-2.4) ... Regenerating fonts cache... done. Setting up libxft2:arm64 (2.3.6-1+b4) ... Setting up libtirpc3t64:arm64 (1.3.6+ds-1) ... Setting up po-debconf (1.0.21+nmu1) ... Setting up libtk8.6:arm64 (8.6.17-1) ... Setting up libparams-classify-perl:arm64 (0.015-2+b4) ... Setting up libpango-1.0-0:arm64 (1.56.3-2) ... Setting up libpsl5t64:arm64 (0.21.2-1.1+b1) ... Setting up libreadline-dev:arm64 (8.3-3) ... Setting up man-db (2.13.1-1) ... Not building database; man-db/auto-update is not 'true'. Setting up gfortran (4:15.2.0-4) ... update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f95 (f95) in auto mode update-alternatives: using /usr/bin/gfortran to provide /usr/bin/f77 (f77) in auto mode Setting up libcairo2:arm64 (1.18.4-1+b1) ... Setting up libpsl-dev:arm64 (0.21.2-1.1+b1) ... Setting up libtirpc-dev:arm64 (1.3.6+ds-1) ... Setting up libgnutls-dane0t64:arm64 (3.8.10-3) ... Setting up libmodule-runtime-perl (0.018-1) ... Setting up librtmp1:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up libgssrpc4t64:arm64 (1.21.3-5) ... Setting up libxt6t64:arm64 (1:1.2.1-1.3) ... Setting up libdist-checkconflicts-perl (0.11-2) ... Setting up libpangoft2-1.0-0:arm64 (1.56.3-2) ... Setting up libngtcp2-crypto-gnutls8:arm64 (1.16.0-1) ... Setting up libpangocairo-1.0-0:arm64 (1.56.3-2) ... Setting up libkadm5clnt-mit12:arm64 (1.21.3-5) ... Setting up libgnutls28-dev:arm64 (3.8.10-3) ... Setting up libcurl4t64:arm64 (8.17.0~rc3-1) ... Setting up libkdb5-10t64:arm64 (1.21.3-5) ... Setting up libmodule-implementation-perl (0.09-2) ... Setting up libpackage-stash-perl (0.40-1) ... Setting up libcurl3t64-gnutls:arm64 (8.17.0~rc3-1) ... Setting up libwww-curl-perl:arm64 (4.17-12) ... Setting up debhelper (13.28) ... Setting up libmodule-runtime-conflicts-perl (0.003-2) ... Setting up libclass-load-perl (0.25-2) ... Setting up r-base-core (4.5.2-1) ... Creating config file /etc/R/Renviron with new version Setting up r-cran-crayon (1.5.3-1) ... Setting up librtmp-dev:arm64 (2.4+20151223.gitfa8646d.1-3) ... Setting up r-cran-futile.options (1.0.1-3) ... Setting up r-cran-lattice (0.22-7-1) ... Setting up r-cran-formatr (1.14-2) ... Setting up r-cran-xml (3.99-0.19-1) ... Setting up libpackage-deprecationmanager-perl (0.18-1) ... Setting up libkadm5srv-mit12:arm64 (1.21.3-5) ... Setting up libdevel-overloadinfo-perl (0.008-1) ... Setting up libclass-load-xs-perl (0.10-2+b4) ... Setting up r-cran-rjson (0.2.23-1) ... Setting up r-cran-r6 (2.6.1-1) ... Setting up libb-hooks-endofscope-perl (0.28-2) ... Setting up r-bioc-genomeinfodbdata (1.2.13-2) ... Setting up krb5-multidev:arm64 (1.21.3-5) ... Setting up r-cran-bh (1.84.0-1) ... Setting up r-cran-curl (7.0.0+dfsg-1) ... Setting up r-cran-codetools (0.2-20-1) ... Setting up r-bioc-biocgenerics (0.52.0-2) ... Setting up r-cran-matrixstats (1.5.0-1) ... Setting up r-base-dev (4.5.2-1) ... Setting up r-bioc-matrixgenerics (1.18.1-1) ... Setting up r-cran-sys (3.4.3-1) ... Setting up r-cran-mime (0.12-2+b1) ... Setting up libmoose-perl:arm64 (2.4000-1) ... Setting up r-cran-abind (1.4-8-1) ... Setting up r-cran-yaml (2.3.10-1) ... Setting up r-cran-lambda.r (1.2.4-2) ... Setting up r-cran-snow (1:0.4.4-2) ... Setting up r-cran-bitops (1.0-9-1) ... Setting up r-bioc-zlibbioc (1.52.0+dfsg-2) ... Setting up r-cran-askpass (1.2.1-1) ... Setting up r-bioc-biobase (2.66.0-2) ... Setting up libkrb5-dev:arm64 (1.21.3-5) ... Setting up r-cran-jsonlite (1.9.1+dfsg-1) ... Setting up libcurl4-openssl-dev:arm64 (8.17.0~rc3-1) ... Setting up r-cran-cpp11 (0.5.2-1) ... Setting up r-bioc-s4vectors (0.44.0+dfsg-2) ... Setting up r-cran-futile.logger (1.4.3-4) ... Setting up libnamespace-clean-perl (0.27-2) ... Setting up r-cran-matrix (1.7-4-1) ... Setting up r-bioc-iranges (2.40.1-3) ... Setting up r-cran-rcurl (1.98-1.16+dfsg-1) ... Setting up r-cran-restfulr (0.0.15-1+b1) ... Setting up r-cran-openssl (2.3.2+dfsg-1) ... Setting up r-bioc-s4arrays (1.6.0+dfsg-2) ... Setting up r-bioc-biocparallel (1.40.0-2) ... Setting up libwww-curl-simple-perl (0.100191-3) ... Setting up r-bioc-rhtslib (3.2.0+dfsg-2) ... Setting up r-bioc-biocio (1.16.0+dfsg-2) ... Setting up r-cran-httr (1.4.7+dfsg-1) ... Setting up r-bioc-xvector (0.46.0-2) ... Setting up dh-r (20250812) ... Setting up r-bioc-ucsc.utils (1.2.0+ds-2) ... Setting up r-bioc-sparsearray (1.6.2+dfsg-2) ... Setting up r-bioc-genomeinfodb (1.42.3+dfsg-1) ... Setting up r-bioc-delayedarray (0.32.0+dfsg-2) ... Setting up r-bioc-genomicranges (1.58.0+dfsg-2) ... Setting up r-bioc-biostrings (2.74.1+dfsg-2) ... Setting up r-bioc-rsamtools (2.22.0+dfsg-2) ... Setting up r-bioc-summarizedexperiment (1.36.0+dfsg-2) ... Setting up r-bioc-genomicalignments (1.42.0-2) ... Processing triggers for libc-bin (2.41-12) ... Processing triggers for ca-certificates (20250419) ... Updating certificates in /etc/ssl/certs... 0 added, 0 removed; done. Running hooks in /etc/ca-certificates/update.d... done. Reading package lists... Building dependency tree... Reading state information... Reading extended state information... Initializing package states... Writing extended state information... Building tag database... -> Finished parsing the build-deps I: Building the package I: user script /srv/workspace/pbuilder/326403/tmp/hooks/A99_set_merged_usr starting Not re-configuring usrmerge for unstable I: user script /srv/workspace/pbuilder/326403/tmp/hooks/A99_set_merged_usr finished hostname: Name or service not known I: Running cd /build/reproducible-path/r-bioc-rtracklayer-1.66.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../r-bioc-rtracklayer_1.66.0-3_source.changes dpkg-buildpackage: info: source package r-bioc-rtracklayer dpkg-buildpackage: info: source version 1.66.0-3 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Rebecca N. Palmer dpkg-source --before-build . dpkg-buildpackage: info: host architecture arm64 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 dh binary --buildsystem R dh_update_autotools_config -O--buildsystem=R dh_autoreconf -O--buildsystem=R configure.ac:19: warning: AC_OUTPUT should be used without arguments. configure.ac:19: You should run autoupdate. dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R dh: command-omitted: The call to "dh_auto_test -O--buildsystem=R" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R dh_auto_install --destdir=debian/r-bioc-rtracklayer/ -O--buildsystem=R I: R Package: rtracklayer Version: 1.66.0 I: Building using R version 4.5.2-1 I: R API version: r-api-4.0 I: Using built-time from d/changelog: Wed, 23 Apr 2025 19:58:02 +0100 mkdir -p /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library R CMD INSTALL -l /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library --clean . --built-timestamp="'Wed, 23 Apr 2025 19:58:02 +0100'" * installing *source* package 'rtracklayer' ... ** this is package 'rtracklayer' version '1.66.0' files 'configure', 'inst/unitTests/test_bed.R', 'src/ucsc/common.c', 'src/ucsc/common.h', 'tests/rtracklayer_unit_tests.R' have the wrong MD5 checksums ** using staged installation checking for pkg-config... /usr/bin/pkg-config checking pkg-config is at least version 0.9.0... yes checking for openssl >= 1.0... yes configure: creating ./config.status config.status: creating src/Makevars ** libs using C compiler: 'gcc (Debian 15.2.0-7) 15.2.0' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c S4Vectors_stubs.c -o S4Vectors_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c IRanges_stubs.c -o IRanges_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c XVector_stubs.c -o XVector_stubs.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c R_init_rtracklayer.c -o R_init_rtracklayer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c readGFF.c -o readGFF.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bbiHelper.c -o bbiHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigWig.c -o bigWig.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBedHelper.c -o bigBedHelper.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c bigBed.c -o bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c chain_io.c -o chain_io.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c twoBit.c -o twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c handlers.c -o handlers.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c utils.c -o utils.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memgfx.c -o ucsc/memgfx.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/binRange.c -o ucsc/binRange.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlColor.c -o ucsc/htmlColor.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlList.c -o ucsc/sqlList.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/tokenizer.c -o ucsc/tokenizer.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/asParse.c -o ucsc/asParse.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/basicBed.c -o ucsc/basicBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bigBed.c -o ucsc/bigBed.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bPlusTree.c -o ucsc/bPlusTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiRead.c -o ucsc/bbiRead.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bbiWrite.c -o ucsc/bbiWrite.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgCreate.c -o ucsc/bwgCreate.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bwgQuery.c -o ucsc/bwgQuery.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/cirTree.c -o ucsc/cirTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/common.c -o ucsc/common.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnaseq.c -o ucsc/dnaseq.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dnautil.c -o ucsc/dnautil.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/errAbort.c -o ucsc/errAbort.o ucsc/errAbort.c: In function 'getThreadVars': ucsc/errAbort.c:255:5: warning: ignoring return value of 'write' declared with attribute 'warn_unused_result' [-Wunused-result] 255 | write(STDERR_FILENO, errMsg, strlen(errMsg)); | ^~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hash.c -o ucsc/hash.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/linefile.c -o ucsc/linefile.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/localmem.c -o ucsc/localmem.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/sqlNum.c -o ucsc/sqlNum.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/zlibFace.c -o ucsc/zlibFace.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dystring.c -o ucsc/dystring.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/hmmstats.c -o ucsc/hmmstats.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/obscure.c -o ucsc/obscure.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/pipeline.c -o ucsc/pipeline.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rangeTree.c -o ucsc/rangeTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/rbTree.c -o ucsc/rbTree.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/memalloc.c -o ucsc/memalloc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/dlist.c -o ucsc/dlist.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/filePath.c -o ucsc/filePath.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/htmlPage.c -o ucsc/htmlPage.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/udc.c -o ucsc/udc.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/net.c -o ucsc/net.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/bits.c -o ucsc/bits.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/twoBit.c -o ucsc/twoBit.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_cheapcgi.c -o ucsc/_cheapcgi.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/internet.c -o ucsc/internet.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/https.c -o ucsc/https.o ucsc/https.c: In function 'openSslInit': ucsc/https.c:76:5: warning: 'ERR_load_SSL_strings' is deprecated: Since OpenSSL 3.0 [-Wdeprecated-declarations] 76 | ERR_load_SSL_strings(); | ^~~~~~~~~~~~~~~~~~~~ In file included from /usr/include/openssl/sslerr.h:17, from /usr/include/openssl/ssl.h:44, from ucsc/https.c:8: /usr/include/openssl/sslerr_legacy.h:29:27: note: declared here 29 | OSSL_DEPRECATEDIN_3_0 int ERR_load_SSL_strings(void); | ^~~~~~~~~~~~~~~~~~~~ gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/base64.c -o ucsc/base64.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/verbose.c -o ucsc/verbose.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/os.c -o ucsc/os.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/wildcmp.c -o ucsc/wildcmp.o gcc -I"/usr/share/R/include" -DNDEBUG -DUSE_SSL -D_FILE_OFFSET_BITS=64 -I'/usr/lib/R/site-library/S4Vectors/include' -I'/usr/lib/R/site-library/IRanges/include' -I'/usr/lib/R/site-library/XVector/include' -fPIC -g -O2 -ffile-prefix-map=/build/reproducible-path/r-base-4.5.2=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -mbranch-protection=standard -Wdate-time -D_FORTIFY_SOURCE=2 -c ucsc/_portimpl.c -o ucsc/_portimpl.o gcc -shared -L/usr/lib/R/lib -Wl,-z,relro -o rtracklayer.so S4Vectors_stubs.o IRanges_stubs.o XVector_stubs.o R_init_rtracklayer.o readGFF.o bbiHelper.o bigWig.o bigBedHelper.o bigBed.o chain_io.o twoBit.o handlers.o utils.o ucsc/memgfx.o ucsc/binRange.o ucsc/htmlColor.o ucsc/sqlList.o ucsc/tokenizer.o ucsc/asParse.o ucsc/basicBed.o ucsc/bigBed.o ucsc/bPlusTree.o ucsc/bbiRead.o ucsc/bbiWrite.o ucsc/bwgCreate.o ucsc/bwgQuery.o ucsc/cirTree.o ucsc/common.o ucsc/dnaseq.o ucsc/dnautil.o ucsc/errAbort.o ucsc/hash.o ucsc/linefile.o ucsc/localmem.o ucsc/sqlNum.o ucsc/zlibFace.o ucsc/dystring.o ucsc/hmmstats.o ucsc/obscure.o ucsc/pipeline.o ucsc/rangeTree.o ucsc/rbTree.o ucsc/memalloc.o ucsc/dlist.o ucsc/filePath.o ucsc/htmlPage.o ucsc/udc.o ucsc/net.o ucsc/bits.o ucsc/twoBit.o ucsc/_cheapcgi.o ucsc/internet.o ucsc/https.o ucsc/base64.o ucsc/verbose.o ucsc/os.o ucsc/wildcmp.o ucsc/_portimpl.o -lz -pthread -lssl -lcrypto -lcurl -L/usr/lib/R/lib -lR /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libz.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /usr/lib/gcc/aarch64-linux-gnu/15/../../../aarch64-linux-gnu/libcrypto.so: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/aarch64-linux-gnu/libc.so.6: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. /lib/ld-linux-aarch64.so.1: warning: GCS is required by -z gcs, but this shared library lacks the necessary property note. The dynamic loader might not enable GCS or refuse to load the program unless all the shared library dependencies have the GCS marking. make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Entering directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' make[1]: Leaving directory '/build/reproducible-path/r-bioc-rtracklayer-1.66.0/src' installing to /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/00LOCK-r-bioc-rtracklayer-1.66.0/00new/rtracklayer/libs ** R ** data ** demo ** inst ** byte-compile and prepare package for lazy loading Creating a generic function for 'offset' from package 'stats' in package 'rtracklayer' ** help *** installing help indices ** building package indices ** installing vignettes ** 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 (rtracklayer) rm -f /build/reproducible-path/r-bioc-rtracklayer-1.66.0/debian/r-bioc-rtracklayer/usr/lib/R/site-library/rtracklayer/LICENSE W: Ignoring specified R dependency: R (>= 3.5.0) I: Using r-bioc-genomicranges for Depends:GenomicRanges (>= 1.37.2) I: Using r-bioc-bsgenome for Suggests:BSgenome (>= 1.33.4) W: Cannot find a debian package for Suggests:humanStemCell W: Cannot find a debian package for Suggests:microRNA (>= 1.1.1) I: Using r-bioc-genefilter for Suggests:genefilter I: Using r-bioc-limma for Suggests:limma I: Using r-bioc-org.hs.eg.db for Suggests:org.Hs.eg.db W: Cannot find a debian package for Suggests:hgu133plus2.db I: Using r-bioc-genomicfeatures for Suggests:GenomicFeatures W: Cannot find a debian package for Suggests:BSgenome.Hsapiens.UCSC.hg19 W: Cannot find a debian package for Suggests:TxDb.Hsapiens.UCSC.hg19.knownGene I: Using r-cran-runit for Suggests:RUnit I: Using r-cran-xml for Imports:XML (>= 1.98-0) I: Using r-bioc-biocgenerics for Imports:BiocGenerics (>= 0.35.3) I: Using r-bioc-s4vectors for Imports:S4Vectors (>= 0.23.18) I: Using r-bioc-iranges for Imports:IRanges (>= 2.13.13) I: Using r-bioc-xvector for Imports:XVector (>= 0.19.7) I: Using r-bioc-genomeinfodb for Imports:GenomeInfoDb (>= 1.15.2) I: Using r-bioc-biostrings for Imports:Biostrings (>= 2.47.6) I: Using r-bioc-zlibbioc for Imports:zlibbioc I: Using r-cran-curl for Imports:curl I: Using r-cran-httr for Imports:httr I: Using r-bioc-rsamtools for Imports:Rsamtools (>= 1.31.2) I: Using r-bioc-genomicalignments for Imports:GenomicAlignments (>= 1.15.6) I: Using r-bioc-biocio for Imports:BiocIO I: Using r-cran-restfulr for Imports:restfulr (>= 0.0.13) I: Using r-bioc-s4vectors for LinkingTo:S4Vectors I: Using r-bioc-iranges for LinkingTo:IRanges I: Using r-bioc-xvector for LinkingTo:XVector I: BioConductor API version: r-api-bioc-3.20 I: Use r-bioc-rtracklayer as Debian binary package for variables substitution dh_installdocs -O--buildsystem=R dh_installchangelogs -O--buildsystem=R dh_installsystemduser -O--buildsystem=R dh_perl -O--buildsystem=R dh_link -O--buildsystem=R dh_strip_nondeterminism -O--buildsystem=R dh_compress -O--buildsystem=R dh_fixperms -O--buildsystem=R dh_missing -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 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 from: /lib/ld-linux-aarch64.so.1 dpkg-shlibdeps: warning: diversions involved - output may be incorrect diversion by libc6 to: /lib/ld-linux-aarch64.so.1.usr-is-merged dh_installdeb -O--buildsystem=R dh_gencontrol -O--buildsystem=R dh_md5sums -O--buildsystem=R dh_builddeb -O--buildsystem=R dpkg-deb: building package 'r-bioc-rtracklayer' in '../r-bioc-rtracklayer_1.66.0-3_arm64.deb'. dpkg-deb: building package 'r-bioc-rtracklayer-dbgsym' in '../r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb'. dpkg-genbuildinfo --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo dpkg-genchanges --build=binary -O../r-bioc-rtracklayer_1.66.0-3_arm64.changes dpkg-genchanges: info: binary-only upload (no source code included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration I: user script /srv/workspace/pbuilder/326403/tmp/hooks/B01_cleanup starting I: user script /srv/workspace/pbuilder/326403/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/326403 and its subdirectories I: Current time: Sat Dec 5 05:39:40 +14 2026 I: pbuilder-time-stamp: 1796398780 + false + set +x Fri Dec 4 15:39:40 UTC 2026 I: Signing ./b2/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo as r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc Fri Dec 4 15:39:40 UTC 2026 I: Signed ./b2/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo as ./b2/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc Fri Dec 4 15:39:40 UTC 2026 - build #2 for r-bioc-rtracklayer/unstable/arm64 on codethink03-arm64 done. Starting cleanup. All cleanup done. Fri Dec 4 15:39:40 UTC 2026 - reproducible_build.sh stopped running as /tmp/jenkins-script-02NoJsNj, removing. /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e: total 160 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 09:14 b1 drwxrwxr-x 2 jenkins jenkins 4096 Nov 1 09:16 b2 -rw-rw-r-- 1 jenkins jenkins 2460 Apr 24 2025 r-bioc-rtracklayer_1.66.0-3.dsc -rw------- 1 jenkins jenkins 146677 Nov 1 09:14 rbuildlog.HavS7uQ /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1: total 5708 -rw-r--r-- 1 jenkins jenkins 142723 Nov 1 09:14 build.log -rw-r--r-- 1 jenkins jenkins 384384 Nov 1 09:14 r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb -rw-r--r-- 1 jenkins jenkins 27896 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2460 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3.dsc -rw-r--r-- 1 jenkins jenkins 12817 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 13699 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc -rw-r--r-- 1 jenkins jenkins 1557 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.changes -rw-r--r-- 1 jenkins jenkins 5219076 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_arm64.deb -rw-r--r-- 1 jenkins jenkins 1368 Nov 1 09:14 r-bioc-rtracklayer_1.66.0-3_source.changes /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2: total 5692 -rw-rw-r-- 1 jenkins jenkins 144744 Nov 1 09:16 build.log -rw-r--r-- 1 jenkins jenkins 384384 Nov 1 09:16 r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb -rw-r--r-- 1 jenkins jenkins 27896 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3.debian.tar.xz -rw-r--r-- 1 jenkins jenkins 2460 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3.dsc -rw-rw-r-- 1 jenkins jenkins 12825 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo -rw-rw-r-- 1 jenkins jenkins 13707 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc -rw-rw-r-- 1 jenkins jenkins 1557 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3_arm64.changes -rw-r--r-- 1 jenkins jenkins 5219076 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3_arm64.deb -rw-rw-r-- 1 jenkins jenkins 1368 Nov 1 09:16 r-bioc-rtracklayer_1.66.0-3_source.changes Sat Nov 1 09:16:41 UTC 2025 I: Deleting $TMPDIR on codethink03-arm64.debian.net. Sat Nov 1 09:16:42 UTC 2025 I: r-bioc-rtracklayer_1.66.0-3_arm64.changes: Format: 1.8 Date: Wed, 23 Apr 2025 19:58:02 +0100 Source: r-bioc-rtracklayer Binary: r-bioc-rtracklayer r-bioc-rtracklayer-dbgsym Architecture: arm64 Version: 1.66.0-3 Distribution: unstable Urgency: medium Maintainer: Debian R Packages Maintainers Changed-By: Rebecca N. Palmer Description: r-bioc-rtracklayer - GNU R interface to genome browsers and their annotation tracks Closes: 1103200 Changes: r-bioc-rtracklayer (1.66.0-3) unstable; urgency=medium . * Team upload. * Avoid pointer type mismatch FTBFS. (Closes: #1103200) Checksums-Sha1: 1331b1ae2d6b69fe93e5129a2a8a74dd8df36988 384384 r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb 941cdb33e2a951334fc1cd4ccd823b8c80e9010c 12817 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo 8348a2ae44ac6da6f28c784ddbe2f18b8ff4d331 5219076 r-bioc-rtracklayer_1.66.0-3_arm64.deb Checksums-Sha256: 85e17fe54eff3cccbb50ffd1ecc982dc5998c85936248bc8b5908b6097f048a8 384384 r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb 7ed7347f34728502bd995a4aa4df638472dc771c781ddcda4e734be7699bed39 12817 r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo 9d83a25358b102cc82b10a723d06a8d9cc3e39c3caf0cc3352930f9f1a593fb7 5219076 r-bioc-rtracklayer_1.66.0-3_arm64.deb Files: 83f6e98894eed381ec12920b0ac76e56 384384 debug optional r-bioc-rtracklayer-dbgsym_1.66.0-3_arm64.deb 28682b03ddddf959a71271b55856052c 12817 gnu-r optional r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo 5866d9be6e9a0bb1ceda9367cf74dccb 5219076 gnu-r optional r-bioc-rtracklayer_1.66.0-3_arm64.deb removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.rbuild.log' removed '/var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.rbuild.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.build1.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/logs/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.build2.log.gz' removed '/var/lib/jenkins/userContent/reproducible/debian/buildinfo/unstable/arm64/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo' removed '/var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.diff.gz' Diff of the two buildlogs: -- --- b1/build.log 2025-11-01 09:14:43.307313974 +0000 +++ b2/build.log 2025-11-01 09:16:41.503458009 +0000 @@ -1,6 +1,6 @@ I: pbuilder: network access will be disabled during build -I: Current time: Fri Oct 31 21:13:10 -12 2025 -I: pbuilder-time-stamp: 1761988391 +I: Current time: Sat Dec 5 05:37:46 +14 2026 +I: pbuilder-time-stamp: 1796398666 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration @@ -26,53 +26,85 @@ dpkg-source: info: applying C23compat.patch I: Not using root during the build. I: Installing the build-deps -I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment starting +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D01_modify_environment starting +debug: Running on codethink03-arm64. +I: Changing host+domainname to test build reproducibility +I: Adding a custom variable just for the fun of it... +I: Changing /bin/sh to bash +'/bin/sh' -> '/bin/bash' +lrwxrwxrwx 1 root root 9 Dec 4 15:37 /bin/sh -> /bin/bash +I: Setting pbuilder2's login shell to /bin/bash +I: Setting pbuilder2's GECOS to second user,second room,second work-phone,second home-phone,second other +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D01_modify_environment finished +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D02_print_environment starting I: set - BUILDDIR='/build/reproducible-path' - BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' - BUILDUSERNAME='pbuilder1' - BUILD_ARCH='arm64' - DEBIAN_FRONTEND='noninteractive' - DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 ' - DISTRIBUTION='unstable' - HOME='/root' - HOST_ARCH='arm64' + BASH=/bin/sh + BASHOPTS=checkwinsize:cmdhist:complete_fullquote:extquote:force_fignore:globasciiranges:globskipdots:hostcomplete:interactive_comments:patsub_replacement:progcomp:promptvars:sourcepath + BASH_ALIASES=() + BASH_ARGC=() + BASH_ARGV=() + BASH_CMDS=() + BASH_LINENO=([0]="12" [1]="0") + BASH_LOADABLES_PATH=/usr/local/lib/bash:/usr/lib/bash:/opt/local/lib/bash:/usr/pkg/lib/bash:/opt/pkg/lib/bash:. + BASH_SOURCE=([0]="/tmp/hooks/D02_print_environment" [1]="/tmp/hooks/D02_print_environment") + BASH_VERSINFO=([0]="5" [1]="3" [2]="3" [3]="1" [4]="release" [5]="aarch64-unknown-linux-gnu") + BASH_VERSION='5.3.3(1)-release' + BUILDDIR=/build/reproducible-path + BUILDUSERGECOS='second user,second room,second work-phone,second home-phone,second other' + BUILDUSERNAME=pbuilder2 + BUILD_ARCH=arm64 + DEBIAN_FRONTEND=noninteractive + DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=12 nocheck' + DIRSTACK=() + DISTRIBUTION=unstable + EUID=0 + FUNCNAME=([0]="Echo" [1]="main") + GROUPS=() + HOME=/root + HOSTNAME=i-capture-the-hostname + HOSTTYPE=aarch64 + HOST_ARCH=arm64 IFS=' ' - INVOCATION_ID='a5387f3e806f47f899f837c04e750f37' - LANG='C' - LANGUAGE='en_US:en' - LC_ALL='C' - MAIL='/var/mail/root' - OPTIND='1' - PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' - PBCURRENTCOMMANDLINEOPERATION='build' - PBUILDER_OPERATION='build' - PBUILDER_PKGDATADIR='/usr/share/pbuilder' - PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' - PBUILDER_SYSCONFDIR='/etc' - PPID='282570' - PS1='# ' - PS2='> ' + INVOCATION_ID=d81c8732cbca4c6fa307b8c2e402f877 + LANG=C + LANGUAGE=nl_BE:nl + LC_ALL=C + MACHTYPE=aarch64-unknown-linux-gnu + MAIL=/var/mail/root + OPTERR=1 + OPTIND=1 + OSTYPE=linux-gnu + PATH=/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path + PBCURRENTCOMMANDLINEOPERATION=build + PBUILDER_OPERATION=build + PBUILDER_PKGDATADIR=/usr/share/pbuilder + PBUILDER_PKGLIBDIR=/usr/lib/pbuilder + PBUILDER_SYSCONFDIR=/etc + PIPESTATUS=([0]="0") + POSIXLY_CORRECT=y + PPID=326403 PS4='+ ' - PWD='/' - SHELL='/bin/bash' - SHLVL='2' - SUDO_COMMAND='/usr/bin/timeout -k 18.1h 18h /usr/bin/ionice -c 3 /usr/bin/nice /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_F2OS --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1 --logfile b1/build.log r-bioc-rtracklayer_1.66.0-3.dsc' - SUDO_GID='109' - SUDO_HOME='/var/lib/jenkins' - SUDO_UID='104' - SUDO_USER='jenkins' - TERM='unknown' - TZ='/usr/share/zoneinfo/Etc/GMT+12' - USER='root' - _='/usr/bin/systemd-run' - http_proxy='http://192.168.101.4:3128' + PWD=/ + SHELL=/bin/bash + SHELLOPTS=braceexpand:errexit:hashall:interactive-comments:posix + SHLVL=3 + SUDO_COMMAND='/usr/bin/timeout -k 24.1h 24h /usr/bin/ionice -c 3 /usr/bin/nice -n 11 /usr/bin/unshare --uts -- /usr/sbin/pbuilder --build --configfile /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/pbuilderrc_KPJ4 --distribution unstable --hookdir /etc/pbuilder/rebuild-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2 --logfile b2/build.log r-bioc-rtracklayer_1.66.0-3.dsc' + SUDO_GID=109 + SUDO_HOME=/var/lib/jenkins + SUDO_UID=104 + SUDO_USER=jenkins + TERM=unknown + TZ=/usr/share/zoneinfo/Etc/GMT-14 + UID=0 + USER=root + _='I: set' + http_proxy=http://192.168.101.4:3128 I: uname -a - Linux codethink04-arm64 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux + Linux i-capture-the-hostname 6.12.48+deb13-cloud-arm64 #1 SMP Debian 6.12.48-1 (2025-09-20) aarch64 GNU/Linux I: ls -l /bin - lrwxrwxrwx 1 root root 7 Aug 10 12:30 /bin -> usr/bin -I: user script /srv/workspace/pbuilder/282570/tmp/hooks/D02_print_environment finished + lrwxrwxrwx 1 root root 7 Aug 10 2025 /bin -> usr/bin +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy @@ -426,7 +458,7 @@ Get: 278 http://deb.debian.org/debian unstable/main arm64 r-cran-rjson arm64 0.2.23-1 [99.0 kB] Get: 279 http://deb.debian.org/debian unstable/main arm64 r-cran-yaml arm64 2.3.10-1 [103 kB] Get: 280 http://deb.debian.org/debian unstable/main arm64 r-cran-restfulr arm64 0.0.15-1+b1 [389 kB] -Fetched 197 MB in 3s (68.4 MB/s) +Fetched 197 MB in 1s (244 MB/s) Preconfiguring packages ... Selecting previously unselected package libexpat1:arm64. (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 ... 19964 files and directories currently installed.) @@ -1329,8 +1361,8 @@ Setting up tzdata (2025b-5) ... Current default time zone: 'Etc/UTC' -Local time is now: Sat Nov 1 09:13:40 UTC 2025. -Universal Time is now: Sat Nov 1 09:13:40 UTC 2025. +Local time is now: Fri Dec 4 15:38:17 UTC 2026. +Universal Time is now: Fri Dec 4 15:38:17 UTC 2026. Run 'dpkg-reconfigure tzdata' if you wish to change it. Setting up zip (3.0-15) ... @@ -1593,7 +1625,11 @@ Building tag database... -> Finished parsing the build-deps I: Building the package -I: Running cd /build/reproducible-path/r-bioc-rtracklayer-1.66.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games" HOME="/nonexistent/first-build" dpkg-genchanges -S > ../r-bioc-rtracklayer_1.66.0-3_source.changes +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/A99_set_merged_usr starting +Not re-configuring usrmerge for unstable +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/A99_set_merged_usr finished +hostname: Name or service not known +I: Running cd /build/reproducible-path/r-bioc-rtracklayer-1.66.0/ && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-buildpackage -us -uc -b && env PATH="/usr/sbin:/usr/bin:/sbin:/bin:/usr/games:/i/capture/the/path" HOME="/nonexistent/second-build" dpkg-genchanges -S > ../r-bioc-rtracklayer_1.66.0-3_source.changes dpkg-buildpackage: info: source package r-bioc-rtracklayer dpkg-buildpackage: info: source version 1.66.0-3 dpkg-buildpackage: info: source distribution unstable @@ -1613,7 +1649,7 @@ configure.ac:19: You should run autoupdate. dh_auto_configure -O--buildsystem=R dh_auto_build -O--buildsystem=R - dh_auto_test -O--buildsystem=R +dh: command-omitted: The call to "dh_auto_test -O--buildsystem=R" was omitted due to "DEB_BUILD_OPTIONS=nocheck" create-stamp debian/debhelper-build-stamp dh_testroot -O--buildsystem=R dh_prep -O--buildsystem=R @@ -1795,12 +1831,14 @@ dpkg-buildpackage: info: binary-only upload (no source included) dpkg-genchanges: info: not including original source code in upload I: copying local configuration +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/B01_cleanup starting +I: user script /srv/workspace/pbuilder/326403/tmp/hooks/B01_cleanup finished I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env -I: removing directory /srv/workspace/pbuilder/282570 and its subdirectories -I: Current time: Fri Oct 31 21:14:42 -12 2025 -I: pbuilder-time-stamp: 1761988482 +I: removing directory /srv/workspace/pbuilder/326403 and its subdirectories +I: Current time: Sat Dec 5 05:39:40 +14 2026 +I: pbuilder-time-stamp: 1796398780 Compressing the 2nd log... /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.diff: 66.7% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/logdiffs/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.diff.gz b2/build.log: 83.9% -- replaced with stdout Compressing the 1st log... b1/build.log: 84.2% -- replaced with stdout Sat Nov 1 09:16:42 UTC 2025 I: diffoscope 306 will be used to compare the two builds: ++ date -u +%s + DIFFOSCOPE_STAMP=/var/log/reproducible-builds/diffoscope_stamp_r-bioc-rtracklayer_unstable_arm64_1761988602 + touch /var/log/reproducible-builds/diffoscope_stamp_r-bioc-rtracklayer_unstable_arm64_1761988602 + RESULT=0 + systemd-run '--description=diffoscope on r-bioc-rtracklayer/1.66.0-3 in unstable/arm64' --slice=rb-build-diffoscope.slice -u rb-diffoscope-arm64_12-127397 '--property=SuccessExitStatus=1 124' --user --send-sighup --pipe --wait -E TMPDIR timeout 155m nice schroot --directory /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e --run-session -c jenkins-reproducible-unstable-diffoscope-c26272f8-2eb6-44f0-8e33-c985153c42a3 -- sh -c 'export TMPDIR=/srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/dbd-tmp-TnfP3qX ; timeout 150m diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1/r-bioc-rtracklayer_1.66.0-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2/r-bioc-rtracklayer_1.66.0-3_arm64.changes' + false + set +x Running as unit: rb-diffoscope-arm64_12-127397.service; invocation ID: 48c75f0376a549c59760a39a1e86495d # Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/r-bioc-rtracklayer_1.66.0-3.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b1/r-bioc-rtracklayer_1.66.0-3_arm64.changes /srv/reproducible-results/rbuild-debian/r-b-build.0bu7dJ6e/b2/r-bioc-rtracklayer_1.66.0-3_arm64.changes ## command (total time: 0.000s) 0.000s 1 call cmp (internal) ## has_same_content_as (total time: 0.000s) 0.000s 1 call diffoscope.comparators.binary.FilesystemFile ## main (total time: 0.003s) 0.003s 2 calls outputs 0.000s 1 call cleanup Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 199ms CPU time consumed: 164ms Memory peak: 17.9M (swap: 0B) _ _ _ _ _ _ __ | |__ (_) ___ ___ _ __| |_ _ __ __ _ ___| | _| | __ _ _ _ | '__|____| '_ \| |/ _ \ / __|____| '__| __| '__/ _` |/ __| |/ / |/ _` | | | | | | |_____| |_) | | (_) | (_|_____| | | |_| | | (_| | (__| <| | (_| | |_| | |_| |_.__/|_|\___/ \___| |_| \__|_| \__,_|\___|_|\_\_|\__,_|\__, | |___/ ___ _ __ / _ \ '__| | __/ | \___|_| Sat Nov 1 09:16:43 UTC 2025 I: diffoscope 306 found no differences in the changes files, and a .buildinfo file also exists. Sat Nov 1 09:16:43 UTC 2025 I: r-bioc-rtracklayer from unstable built successfully and reproducibly on arm64. INSERT 0 1 INSERT 0 1 DELETE 1 [2025-11-01 09:16:43] INFO: Starting at 2025-11-01 09:16:43.721653 [2025-11-01 09:16:43] INFO: Generating the pages of 1 package(s) [2025-11-01 09:16:44] CRITICAL: https://tests.reproducible-builds.org/debian/unstable/arm64/r-bioc-rtracklayer didn't produce a buildlog, even though it has been built. [2025-11-01 09:16:44] INFO: Finished at 2025-11-01 09:16:44.073417, took: 0:00:00.351767 Sat Nov 1 09:16:44 UTC 2025 - successfully updated the database and updated https://tests.reproducible-builds.org/debian/rb-pkg/unstable/arm64/r-bioc-rtracklayer.html Sat Nov 1 09:16:44 UTC 2025 I: Removing signed r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc files: removed './b1/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc' removed './b2/r-bioc-rtracklayer_1.66.0-3_arm64.buildinfo.asc' 1761988604 arm64 unstable r-bioc-rtracklayer Starting cleanup. /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.rbuild.log: 82.9% -- replaced with /var/lib/jenkins/userContent/reproducible/debian/rbuild/unstable/arm64/r-bioc-rtracklayer_1.66.0-3.rbuild.log.gz [2025-11-01 09:16:44] INFO: Starting at 2025-11-01 09:16:44.387095 [2025-11-01 09:16:44] INFO: Generating the pages of 1 package(s) [2025-11-01 09:16:44] INFO: Finished at 2025-11-01 09:16:44.664111, took: 0:00:00.277018 All cleanup done. Sat Nov 1 09:16:44 UTC 2025 - total duration: 0h 3m 52s. Sat Nov 1 09:16:44 UTC 2025 - reproducible_build.sh stopped running as /tmp/jenkins-script-sbWHmiyw, removing. Finished with result: success Main processes terminated with: code=exited, status=0/SUCCESS Service runtime: 3min 53.375s CPU time consumed: 3.279s Memory peak: 57.8M (swap: 0B)