I: pbuilder: network access will be disabled during build
I: Current time: Thu Apr 23 15:39:28 -12 2026
I: pbuilder-time-stamp: 1777001968
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/bookworm-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: using eatmydata during job
I: Copying source file
I: copying [r-bioc-dupradar_1.28.0+ds-1.dsc]
I: copying [./r-bioc-dupradar_1.28.0+ds.orig.tar.xz]
I: copying [./r-bioc-dupradar_1.28.0+ds-1.debian.tar.xz]
I: Extracting source
gpgv: Signature made Sun Nov 20 04:13:15 2022 -12
gpgv:                using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv:                issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./r-bioc-dupradar_1.28.0+ds-1.dsc: no acceptable signature found
dpkg-source: info: extracting r-bioc-dupradar in r-bioc-dupradar-1.28.0+ds
dpkg-source: info: unpacking r-bioc-dupradar_1.28.0+ds.orig.tar.xz
dpkg-source: info: unpacking r-bioc-dupradar_1.28.0+ds-1.debian.tar.xz
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/56376/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='i386'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=22 '
  DISTRIBUTION='bookworm'
  HOME='/root'
  HOST_ARCH='i386'
  IFS=' 	
  '
  INVOCATION_ID='ffb4504bcc184779837477cf6ecf2ddc'
  LANG='C'
  LANGUAGE='en_US:en'
  LC_ALL='C'
  LD_LIBRARY_PATH='/usr/lib/libeatmydata'
  LD_PRELOAD='libeatmydata.so'
  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='56376'
  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.jY9XvLoj/pbuilderrc_aMfi --distribution bookworm --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/bookworm-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.jY9XvLoj/b1 --logfile b1/build.log r-bioc-dupradar_1.28.0+ds-1.dsc'
  SUDO_GID='112'
  SUDO_UID='107'
  SUDO_USER='jenkins'
  TERM='unknown'
  TZ='/usr/share/zoneinfo/Etc/GMT+12'
  USER='root'
  _='/usr/bin/systemd-run'
  http_proxy='http://213.165.73.152:3128'
I: uname -a
  Linux ionos6-i386 6.1.0-32-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.129-1 (2025-03-06) x86_64 GNU/Linux
I: ls -l /bin
  total 6036
  -rwxr-xr-x 1 root root 1408088 Mar 29  2024 bash
  -rwxr-xr-x 3 root root   38404 Sep 18  2022 bunzip2
  -rwxr-xr-x 3 root root   38404 Sep 18  2022 bzcat
  lrwxrwxrwx 1 root root       6 Sep 18  2022 bzcmp -> bzdiff
  -rwxr-xr-x 1 root root    2225 Sep 18  2022 bzdiff
  lrwxrwxrwx 1 root root       6 Sep 18  2022 bzegrep -> bzgrep
  -rwxr-xr-x 1 root root    4893 Nov 27  2021 bzexe
  lrwxrwxrwx 1 root root       6 Sep 18  2022 bzfgrep -> bzgrep
  -rwxr-xr-x 1 root root    3775 Sep 18  2022 bzgrep
  -rwxr-xr-x 3 root root   38404 Sep 18  2022 bzip2
  -rwxr-xr-x 1 root root   17892 Sep 18  2022 bzip2recover
  lrwxrwxrwx 1 root root       6 Sep 18  2022 bzless -> bzmore
  -rwxr-xr-x 1 root root    1297 Sep 18  2022 bzmore
  -rwxr-xr-x 1 root root   42920 Sep 20  2022 cat
  -rwxr-xr-x 1 root root   79816 Sep 20  2022 chgrp
  -rwxr-xr-x 1 root root   67496 Sep 20  2022 chmod
  -rwxr-xr-x 1 root root   79816 Sep 20  2022 chown
  -rwxr-xr-x 1 root root  162024 Sep 20  2022 cp
  -rwxr-xr-x 1 root root  136916 Jan  5  2023 dash
  -rwxr-xr-x 1 root root  137160 Sep 20  2022 date
  -rwxr-xr-x 1 root root  100364 Sep 20  2022 dd
  -rwxr-xr-x 1 root root  108940 Sep 20  2022 df
  -rwxr-xr-x 1 root root  162152 Sep 20  2022 dir
  -rwxr-xr-x 1 root root   87760 Nov 21  2024 dmesg
  lrwxrwxrwx 1 root root       8 Dec 19  2022 dnsdomainname -> hostname
  lrwxrwxrwx 1 root root       8 Dec 19  2022 domainname -> hostname
  -rwxr-xr-x 1 root root   38760 Sep 20  2022 echo
  -rwxr-xr-x 1 root root      41 Jan 24  2023 egrep
  -rwxr-xr-x 1 root root   34664 Sep 20  2022 false
  -rwxr-xr-x 1 root root      41 Jan 24  2023 fgrep
  -rwxr-xr-x 1 root root   84272 Nov 21  2024 findmnt
  -rwsr-xr-x 1 root root   30240 Mar 22  2023 fusermount
  -rwxr-xr-x 1 root root  218680 Jan 24  2023 grep
  -rwxr-xr-x 2 root root    2346 Apr  9  2022 gunzip
  -rwxr-xr-x 1 root root    6447 Apr  9  2022 gzexe
  -rwxr-xr-x 1 root root  100952 Apr  9  2022 gzip
  -rwxr-xr-x 1 root root   21916 Dec 19  2022 hostname
  -rwxr-xr-x 1 root root   75756 Sep 20  2022 ln
  -rwxr-xr-x 1 root root   55600 Mar 22  2023 login
  -rwxr-xr-x 1 root root  162152 Sep 20  2022 ls
  -rwxr-xr-x 1 root root  214568 Nov 21  2024 lsblk
  -rwxr-xr-x 1 root root   96328 Sep 20  2022 mkdir
  -rwxr-xr-x 1 root root   84008 Sep 20  2022 mknod
  -rwxr-xr-x 1 root root   38792 Sep 20  2022 mktemp
  -rwxr-xr-x 1 root root   63016 Nov 21  2024 more
  -rwsr-xr-x 1 root root   58912 Nov 21  2024 mount
  -rwxr-xr-x 1 root root   13856 Nov 21  2024 mountpoint
  -rwxr-xr-x 1 root root  157932 Sep 20  2022 mv
  lrwxrwxrwx 1 root root       8 Dec 19  2022 nisdomainname -> hostname
  lrwxrwxrwx 1 root root      14 Apr  2  2023 pidof -> /sbin/killall5
  -rwxr-xr-x 1 root root   38792 Sep 20  2022 pwd
  lrwxrwxrwx 1 root root       4 Mar 29  2024 rbash -> bash
  -rwxr-xr-x 1 root root   51080 Sep 20  2022 readlink
  -rwxr-xr-x 1 root root   75720 Sep 20  2022 rm
  -rwxr-xr-x 1 root root   51080 Sep 20  2022 rmdir
  -rwxr-xr-x 1 root root   22308 Jul 28  2023 run-parts
  -rwxr-xr-x 1 root root  133224 Jan  5  2023 sed
  lrwxrwxrwx 1 root root       4 Jan  5  2023 sh -> dash
  -rwxr-xr-x 1 root root   38760 Sep 20  2022 sleep
  -rwxr-xr-x 1 root root   87976 Sep 20  2022 stty
  -rwsr-xr-x 1 root root   83492 Nov 21  2024 su
  -rwxr-xr-x 1 root root   38792 Sep 20  2022 sync
  -rwxr-xr-x 1 root root  598456 Jan 19  2024 tar
  -rwxr-xr-x 1 root root   13860 Jul 28  2023 tempfile
  -rwxr-xr-x 1 root root  120776 Sep 20  2022 touch
  -rwxr-xr-x 1 root root   34664 Sep 20  2022 true
  -rwxr-xr-x 1 root root   17892 Mar 22  2023 ulockmgr_server
  -rwsr-xr-x 1 root root   30236 Nov 21  2024 umount
  -rwxr-xr-x 1 root root   38760 Sep 20  2022 uname
  -rwxr-xr-x 2 root root    2346 Apr  9  2022 uncompress
  -rwxr-xr-x 1 root root  162152 Sep 20  2022 vdir
  -rwxr-xr-x 1 root root   71216 Nov 21  2024 wdctl
  lrwxrwxrwx 1 root root       8 Dec 19  2022 ypdomainname -> hostname
  -rwxr-xr-x 1 root root    1984 Apr  9  2022 zcat
  -rwxr-xr-x 1 root root    1678 Apr  9  2022 zcmp
  -rwxr-xr-x 1 root root    6460 Apr  9  2022 zdiff
  -rwxr-xr-x 1 root root      29 Apr  9  2022 zegrep
  -rwxr-xr-x 1 root root      29 Apr  9  2022 zfgrep
  -rwxr-xr-x 1 root root    2081 Apr  9  2022 zforce
  -rwxr-xr-x 1 root root    8103 Apr  9  2022 zgrep
  -rwxr-xr-x 1 root root    2206 Apr  9  2022 zless
  -rwxr-xr-x 1 root root    1842 Apr  9  2022 zmore
  -rwxr-xr-x 1 root root    4577 Apr  9  2022 znew
I: user script /srv/workspace/pbuilder/56376/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: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
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-rsubread, r-cran-kernsmooth
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19554 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-rsubread; however:
  Package r-bioc-rsubread is not installed.
 pbuilder-satisfydepends-dummy depends on r-cran-kernsmooth; however:
  Package r-cran-kernsmooth 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:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{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} gettext{a} gettext-base{a} gfortran{a} gfortran-12{a} groff-base{a} icu-devtools{a} intltool-debian{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} libbrotli1{a} libbsd0{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcurl3-gnutls{a} libcurl4{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{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} libelf1{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-12-dev{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{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} libncurses5-dev{a} libncurses6{a} libnghttp2-14{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} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre16-3{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcre3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16{a} libpsl5{a} libreadline-dev{a} libreadline8{a} libregexp-ipv6-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsm6{a} libssh2-1{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libsub-override-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{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{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6{a} m4{a} man-db{a} openssl{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-cran-kernsmooth{a} r-cran-mass{a} readline-common{a} sensible-utils{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 libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx publicsuffix r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 
0 packages upgraded, 179 newly installed, 0 to remove and 0 not upgraded.
Need to get 101 MB of archives. After unpacking 307 MB will be used.
The following packages have unmet dependencies:
 pbuilder-satisfydepends-dummy : Depends: r-bioc-rsubread which is a virtual package and is not provided by any available package

Unable to resolve dependencies!  Giving up...
The following NEW packages will be installed:
  autoconf{a} automake{a} autopoint{a} autotools-dev{a} bsdextrautils{a} ca-certificates{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} gettext{a} gettext-base{a} gfortran{a} gfortran-12{a} groff-base{a} icu-devtools{a} intltool-debian{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} libbrotli1{a} libbsd0{a} libbz2-dev{a} libcairo2{a} libclass-c3-perl{a} libclass-load-perl{a} libclass-load-xs-perl{a} libclone-perl{a} libcurl3-gnutls{a} libcurl4{a} libdata-optlist-perl{a} libdatrie1{a} libdebhelper-perl{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} libelf1{a} libencode-locale-perl{a} libeval-closure-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfile-which-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran-12-dev{a} libgfortran5{a} libglib2.0-0{a} libgraphite2-3{a} libharfbuzz0b{a} libhttp-date-perl{a} libhttp-message-perl{a} libice6{a} libicu-dev{a} libicu72{a} libio-html-perl{a} libjbig0{a} libjpeg-dev{a} libjpeg62-turbo{a} libjpeg62-turbo-dev{a} liblapack-dev{a} liblapack3{a} libldap-2.5-0{a} liblerc4{a} liblwp-mediatypes-perl{a} liblzma-dev{a} libmagic-mgc{a} libmagic1{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} libncurses5-dev{a} libncurses6{a} libnghttp2-14{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} libpaper1{a} libparams-classify-perl{a} libparams-util-perl{a} libpcre16-3{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpcre3{a} libpcre3-dev{a} libpcre32-3{a} libpcrecpp0v5{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng-dev{a} libpng16-16{a} libpsl5{a} libreadline-dev{a} libreadline8{a} libregexp-ipv6-perl{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsm6{a} libssh2-1{a} libsub-exporter-perl{a} libsub-exporter-progressive-perl{a} libsub-identify-perl{a} libsub-install-perl{a} libsub-name-perl{a} libsub-override-perl{a} libswitch-perl{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtimedate-perl{a} libtk8.6{a} libtool{a} libtry-tiny-perl{a} libuchardet0{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{a} libxmuu1{a} libxrender1{a} libxss1{a} libxt6{a} m4{a} man-db{a} openssl{a} pkg-config{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} r-base-core{a} r-base-dev{a} r-cran-kernsmooth{a} r-cran-mass{a} readline-common{a} sensible-utils{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 libarchive-cpio-perl libclass-c3-xs-perl libdevel-lexalias-perl libdevel-partialdump-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libpng-tools libsasl2-modules libx11-protocol-perl lynx publicsuffix r-doc-html r-recommended shared-mime-info wget x11-utils x11-xserver-utils xdg-user-dirs 
0 packages upgraded, 179 newly installed, 0 to remove and 0 not upgraded.
Need to get 101 MB of archives. After unpacking 307 MB will be used.
Abort.
E: pbuilder-satisfydepends failed.
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/56376 and its subdirectories