Sun Mar 16 14:47:16 UTC 2025  I: starting to build freebayes/trixie/amd64 on jenkins on '2025-03-16 14:47'
Sun Mar 16 14:47:16 UTC 2025  I: The jenkins build log is/was available at https://jenkins.debian.net/userContent/reproducible/debian/build_service/amd64_10/33231/console.log
Sun Mar 16 14:47:16 UTC 2025  I: Downloading source for trixie/freebayes=1.3.9-1
--2025-03-16 14:47:16--  http://deb.debian.org/debian/pool/main/f/freebayes/freebayes_1.3.9-1.dsc
Connecting to 46.16.76.132:3128... connected.
Proxy request sent, awaiting response... 200 OK
Length: 2201 (2.1K) [text/prs.lines.tag]
Saving to: ‘freebayes_1.3.9-1.dsc’

     0K ..                                                    100%  380M=0s

2025-03-16 14:47:16 (380 MB/s) - ‘freebayes_1.3.9-1.dsc’ saved [2201/2201]

Sun Mar 16 14:47:16 UTC 2025  I: freebayes_1.3.9-1.dsc
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Hash: SHA512

Format: 3.0 (quilt)
Source: freebayes
Binary: freebayes
Architecture: any
Version: 1.3.9-1
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Brad Chapman <chapmanb@50mail.com>, Andreas Tille <tille@debian.org>
Homepage: https://github.com/ekg/freebayes
Standards-Version: 4.7.0
Vcs-Browser: https://salsa.debian.org/med-team/freebayes
Vcs-Git: https://salsa.debian.org/med-team/freebayes.git
Testsuite: autopkgtest
Build-Depends: debhelper-compat (= 13), meson, ninja-build, pkgconf, zlib1g-dev, libbamtools-dev, libvcflib-dev (>= 1.0.12~), libtabixpp-dev, libseqlib-dev, bc, samtools, parallel <!nocheck>, libvcflib-tools <!nocheck>, debhelper
Package-List:
 freebayes deb science optional arch=any
Checksums-Sha1:
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 a7d2f742fea1903522acf62b793c4366a327cc4f 19708 freebayes_1.3.9-1.debian.tar.xz
Checksums-Sha256:
 41ed3074c7648375286168a6708e02dac6788eaca4ca6039ff5a7ed91f257b53 2896143 freebayes_1.3.9.orig.tar.gz
 7a59242fe78e86986fb0f1410f5a282c19d352651b8f76611a4cedee9e3ccdc3 19708 freebayes_1.3.9-1.debian.tar.xz
Files:
 5675648a05ad1d770a1c1e96f8c8f1d5 2896143 freebayes_1.3.9.orig.tar.gz
 a5d83229bdb0a1bad16e8daba7d9acef 19708 freebayes_1.3.9-1.debian.tar.xz

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Sun Mar 16 14:47:16 UTC 2025  I: Checking whether the package is not for us
Sun Mar 16 14:47:16 UTC 2025  I: Starting 1st build on remote node ionos5-amd64.debian.net.
Sun Mar 16 14:47:16 UTC 2025  I: Preparing to do remote build '1' on ionos5-amd64.debian.net.
Sun Mar 16 14:48:56 UTC 2025  I: Deleting $TMPDIR on ionos5-amd64.debian.net.
I: pbuilder: network access will be disabled during build
I: Current time: Sat Apr 18 09:10:17 -12 2026
I: pbuilder-time-stamp: 1776546617
I: Building the build Environment
I: extracting base tarball [/var/cache/pbuilder/trixie-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 [freebayes_1.3.9-1.dsc]
I: copying [./freebayes_1.3.9.orig.tar.gz]
I: copying [./freebayes_1.3.9-1.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./freebayes_1.3.9-1.dsc: unsupported subcommand
dpkg-source: info: extracting freebayes in freebayes-1.3.9
dpkg-source: info: unpacking freebayes_1.3.9.orig.tar.gz
dpkg-source: info: unpacking freebayes_1.3.9-1.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying 0001-Testing-cleaner-build-for-Debian.patch
dpkg-source: info: applying 0003-fastahack-and-smithwaterman-dep-treatment.patch
dpkg-source: info: applying 0004-Simplified-build-for-debian.patch
dpkg-source: info: applying 0005-Put-Variant.h-as-vcflib-Variant.h.patch
dpkg-source: info: applying 0006-Make-vcflib-smithwaterman-and-fastahack-external-inc.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/3446840/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='amd64'
  DEBIAN_FRONTEND='noninteractive'
  DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=42 '
  DISTRIBUTION='trixie'
  HOME='/root'
  HOST_ARCH='amd64'
  IFS=' 	
  '
  INVOCATION_ID='31a6363280fa4355bd8246bd21bedb95'
  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='3446840'
  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.HVm22H36/pbuilderrc_xncc --distribution trixie --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/trixie-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/b1 --logfile b1/build.log freebayes_1.3.9-1.dsc'
  SUDO_GID='110'
  SUDO_UID='105'
  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 ionos5-amd64 6.12.12+bpo-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.12.12-1~bpo12+1 (2025-02-23) x86_64 GNU/Linux
I: ls -l /bin
  lrwxrwxrwx 1 root root 7 Mar  4  2025 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/3446840/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: amd64
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), meson, ninja-build, pkgconf, zlib1g-dev, libbamtools-dev, libvcflib-dev (>= 1.0.12~), libtabixpp-dev, libseqlib-dev, bc, samtools, parallel, libvcflib-tools, debhelper
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19803 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 meson; however:
  Package meson is not installed.
 pbuilder-satisfydepends-dummy depends on ninja-build; however:
  Package ninja-build is not installed.
 pbuilder-satisfydepends-dummy depends on pkgconf; however:
  Package pkgconf is not installed.
 pbuilder-satisfydepends-dummy depends on zlib1g-dev; however:
  Package zlib1g-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libbamtools-dev; however:
  Package libbamtools-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libvcflib-dev (>= 1.0.12~); however:
  Package libvcflib-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libtabixpp-dev; however:
  Package libtabixpp-dev is not installed.
 pbuilder-satisfydepends-dummy depends on libseqlib-dev; however:
  Package libseqlib-dev is not installed.
 pbuilder-satisfydepends-dummy depends on bc; however:
  Package bc is not installed.
 pbuilder-satisfydepends-dummy depends on samtools; however:
  Package samtools is not installed.
 pbuilder-satisfydepends-dummy depends on parallel; however:
  Package parallel is not installed.
 pbuilder-satisfydepends-dummy depends on libvcflib-tools; however:
  Package libvcflib-tools is not installed.
 pbuilder-satisfydepends-dummy depends on debhelper; however:
  Package debhelper 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} bc{a} bsdextrautils{a} ca-certificates{a} comerr-dev{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} krb5-multidev{a} libarchive-zip-perl{a} libbamtools-dev{a} libbamtools2.5.2{a} libblas3{a} libbrotli-dev{a} libbrotli1{a} libbwa-dev{a} libbz2-dev{a} libcairo2{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4-gnutls-dev{a} libcurl4t64{a} libdatrie1{a} libdebhelper-perl{a} libdeflate-dev{a} libdeflate0{a} libdisorder-dev{a} libdisorder0{a} libelf1t64{a} libevent-2.1-7t64{a} libexpat1{a} libfastahack-dev{a} libfastahack0{a} libffi8{a} libfile-stripnondeterminism-perl{a} libfml-dev{a} libfml0{a} libfontconfig1{a} libfreetype6{a} libfribidi0{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} libhts-dev{a} libhts3t64{a} libhtscodecs2{a} libice6{a} libicu72{a} libidn2-0{a} libidn2-dev{a} libjbig0{a} libjpeg62-turbo{a} libjsoncpp-dev{a} libjsoncpp26{a} libk5crypto3{a} libkadm5clnt-mit12{a} libkadm5srv-mit12{a} libkdb5-10t64{a} libkeyutils1{a} libkrb5-3{a} libkrb5-dev{a} libkrb5support0{a} liblapack3{a} libldap-dev{a} libldap2{a} liblerc4{a} liblzma-dev{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libnghttp2-dev{a} libnghttp3-9{a} libnghttp3-dev{a} libngtcp2-16{a} libngtcp2-crypto-gnutls-dev{a} libngtcp2-crypto-gnutls8{a} libngtcp2-dev{a} libp11-kit-dev{a} libp11-kit0{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper2{a} libpipeline1{a} libpixman-1-0{a} libpkgconf3{a} libpng16-16t64{a} libproc2-0{a} libpsl-dev{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libreadline8t64{a} librtmp-dev{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsensors-config{a} libsensors5{a} libseqlib-dev{a} libseqlib2{a} libsharpyuv0{a} libsm6{a} libsmithwaterman-dev{a} libsmithwaterman0{a} libssh2-1-dev{a} libssh2-1t64{a} libssl-dev{a} libssw-dev{a} libssw0{a} libtabixpp-dev{a} libtabixpp0t64{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} libtirpc-common{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libuchardet0{a} libunbound8{a} libunistring5{a} libvcflib-dev{a} libvcflib-tools{a} libvcflib2{a} libwebp7{a} libwfa2-0{a} libwfa2-dev{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} libxrender1{a} libxss1{a} libxt6t64{a} libzstd-dev{a} littler{a} m4{a} man-db{a} media-types{a} meson{a} netbase{a} nettle-dev{a} ninja-build{a} openssl{a} parallel{a} pkgconf{a} pkgconf-bin{a} po-debconf{a} procps{a} python3{a} python3-autocommand{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jaraco.text{a} python3-minimal{a} python3-more-itertools{a} python3-pkg-resources{a} python3-setuptools{a} python3-typeguard{a} python3-typing-extensions{a} python3-zipp{a} python3.13{a} python3.13-minimal{a} r-base-core{a} r-cran-cli{a} r-cran-colorspace{a} r-cran-fansi{a} r-cran-farver{a} r-cran-ggplot2{a} r-cran-glue{a} r-cran-gridbase{a} r-cran-gtable{a} r-cran-isoband{a} r-cran-labeling{a} r-cran-lattice{a} r-cran-lifecycle{a} r-cran-littler{a} r-cran-magrittr{a} r-cran-mass{a} r-cran-matrix{a} r-cran-mgcv{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-pillar{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-plyr{a} r-cran-r6{a} r-cran-rcolorbrewer{a} r-cran-rcpp{a} r-cran-rlang{a} r-cran-scales{a} r-cran-tibble{a} r-cran-utf8{a} r-cran-vctrs{a} r-cran-viridislite{a} r-cran-withr{a} readline-common{a} samtools{a} sensible-utils{a} sysstat{a} tzdata{a} ucf{a} unzip{a} x11-common{a} xdg-utils{a} zip{a} zlib1g-dev{a} 
The following packages are RECOMMENDED but will NOT be installed:
  bcron bzip2-doc cron cronie curl krb5-locales libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libsasl2-modules libtasn1-doc libx11-protocol-perl linux-sysctl-defaults lynx psmisc publicsuffix r-base-dev r-cran-abind r-cran-bench r-cran-bit64 r-cran-blob r-cran-brio r-cran-callr r-cran-covr r-cran-crayon r-cran-dbi r-cran-diagrammer r-cran-dichromat r-cran-digest r-cran-doparallel r-cran-dplyr r-cran-evaluate r-cran-foreach r-cran-formattable r-cran-fs r-cran-generics r-cran-here r-cran-hexbin r-cran-hmisc r-cran-hms r-cran-htmltools r-cran-htmlwidgets r-cran-iterators r-cran-itertools r-cran-jpeg r-cran-kernlab r-cran-kernsmooth r-cran-knitr r-cran-lintr r-cran-lobstr r-cran-lubridate r-cran-mapproj r-cran-maps r-cran-multcomp r-cran-mvtnorm r-cran-nanotime r-cran-palmerpenguins r-cran-pkgbuild r-cran-pkgdown r-cran-pkgload r-cran-png r-cran-processx r-cran-profvis r-cran-ps r-cran-purrr r-cran-quantreg r-cran-ragg r-cran-rmarkdown r-cran-rpart r-cran-rprojroot r-cran-rsqlite r-cran-rstudioapi r-cran-sf r-cran-shiny r-cran-shinyjs r-cran-stringi r-cran-survival r-cran-svglite r-cran-testthat r-cran-tidyr r-cran-tidyverse r-cran-unitizer r-cran-units r-cran-usethis r-cran-vcd r-cran-vdiffr r-cran-viridis r-cran-waldo r-cran-whoami r-cran-xml2 r-cran-zeallot r-doc-html r-recommended shared-mime-info systemd systemd-cron wget x11-utils x11-xserver-utils xdg-user-dirs 
0 packages upgraded, 246 newly installed, 0 to remove and 0 not upgraded.
Need to get 135 MB of archives. After unpacking 356 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian trixie/main amd64 libpython3.13-minimal amd64 3.13.2-1 [859 kB]
Get: 2 http://deb.debian.org/debian trixie/main amd64 libexpat1 amd64 2.6.4-1 [106 kB]
Get: 3 http://deb.debian.org/debian trixie/main amd64 python3.13-minimal amd64 3.13.2-1 [2205 kB]
Get: 4 http://deb.debian.org/debian trixie/main amd64 python3-minimal amd64 3.13.2-2 [27.1 kB]
Get: 5 http://deb.debian.org/debian trixie/main amd64 media-types all 13.0.0 [29.3 kB]
Get: 6 http://deb.debian.org/debian trixie/main amd64 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian trixie/main amd64 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian trixie/main amd64 libffi8 amd64 3.4.7-1 [23.9 kB]
Get: 9 http://deb.debian.org/debian trixie/main amd64 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian trixie/main amd64 libreadline8t64 amd64 8.2-6 [169 kB]
Get: 11 http://deb.debian.org/debian trixie/main amd64 libpython3.13-stdlib amd64 3.13.2-1 [1979 kB]
Get: 12 http://deb.debian.org/debian trixie/main amd64 python3.13 amd64 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian trixie/main amd64 libpython3-stdlib amd64 3.13.2-2 [10.1 kB]
Get: 14 http://deb.debian.org/debian trixie/main amd64 python3 amd64 3.13.2-2 [28.1 kB]
Get: 15 http://deb.debian.org/debian trixie/main amd64 libproc2-0 amd64 2:4.0.4-7 [64.9 kB]
Get: 16 http://deb.debian.org/debian trixie/main amd64 procps amd64 2:4.0.4-7 [878 kB]
Get: 17 http://deb.debian.org/debian trixie/main amd64 sensible-utils all 0.0.24 [24.8 kB]
Get: 18 http://deb.debian.org/debian trixie/main amd64 openssl amd64 3.4.1-1 [1427 kB]
Get: 19 http://deb.debian.org/debian trixie/main amd64 ca-certificates all 20241223 [164 kB]
Get: 20 http://deb.debian.org/debian trixie/main amd64 libmagic-mgc amd64 1:5.45-3+b1 [314 kB]
Get: 21 http://deb.debian.org/debian trixie/main amd64 libmagic1t64 amd64 1:5.45-3+b1 [108 kB]
Get: 22 http://deb.debian.org/debian trixie/main amd64 file amd64 1:5.45-3+b1 [43.3 kB]
Get: 23 http://deb.debian.org/debian trixie/main amd64 gettext-base amd64 0.23.1-1 [243 kB]
Get: 24 http://deb.debian.org/debian trixie/main amd64 libuchardet0 amd64 0.0.8-1+b2 [68.9 kB]
Get: 25 http://deb.debian.org/debian trixie/main amd64 groff-base amd64 1.23.0-7 [1185 kB]
Get: 26 http://deb.debian.org/debian trixie/main amd64 bsdextrautils amd64 2.40.4-5 [92.4 kB]
Get: 27 http://deb.debian.org/debian trixie/main amd64 libpipeline1 amd64 1.5.8-1 [42.0 kB]
Get: 28 http://deb.debian.org/debian trixie/main amd64 man-db amd64 2.13.0-1 [1420 kB]
Get: 29 http://deb.debian.org/debian trixie/main amd64 libtext-charwidth-perl amd64 0.04-11+b4 [9476 B]
Get: 30 http://deb.debian.org/debian trixie/main amd64 libtext-wrapi18n-perl all 0.06-10 [8808 B]
Get: 31 http://deb.debian.org/debian trixie/main amd64 ucf all 3.0050 [42.7 kB]
Get: 32 http://deb.debian.org/debian trixie/main amd64 m4 amd64 1.4.19-7 [294 kB]
Get: 33 http://deb.debian.org/debian trixie/main amd64 autoconf all 2.72-3 [493 kB]
Get: 34 http://deb.debian.org/debian trixie/main amd64 autotools-dev all 20220109.1 [51.6 kB]
Get: 35 http://deb.debian.org/debian trixie/main amd64 automake all 1:1.17-3 [862 kB]
Get: 36 http://deb.debian.org/debian trixie/main amd64 autopoint all 0.23.1-1 [770 kB]
Get: 37 http://deb.debian.org/debian trixie/main amd64 bc amd64 1.07.1-4 [103 kB]
Get: 38 http://deb.debian.org/debian trixie/main amd64 libcom-err2 amd64 1.47.2-1 [24.0 kB]
Get: 39 http://deb.debian.org/debian trixie/main amd64 comerr-dev amd64 2.1-1.47.2-1 [55.7 kB]
Get: 40 http://deb.debian.org/debian trixie/main amd64 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 41 http://deb.debian.org/debian trixie/main amd64 libtool all 2.5.4-4 [539 kB]
Get: 42 http://deb.debian.org/debian trixie/main amd64 dh-autoreconf all 20 [17.1 kB]
Get: 43 http://deb.debian.org/debian trixie/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 44 http://deb.debian.org/debian trixie/main amd64 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 45 http://deb.debian.org/debian trixie/main amd64 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 46 http://deb.debian.org/debian trixie/main amd64 libelf1t64 amd64 0.192-4 [189 kB]
Get: 47 http://deb.debian.org/debian trixie/main amd64 dwz amd64 0.15-1+b1 [110 kB]
Get: 48 http://deb.debian.org/debian trixie/main amd64 libunistring5 amd64 1.3-1 [476 kB]
Get: 49 http://deb.debian.org/debian trixie/main amd64 libicu72 amd64 72.1-6 [9421 kB]
Get: 50 http://deb.debian.org/debian trixie/main amd64 libxml2 amd64 2.12.7+dfsg+really2.9.14-0.2+b2 [699 kB]
Get: 51 http://deb.debian.org/debian trixie/main amd64 gettext amd64 0.23.1-1 [1680 kB]
Get: 52 http://deb.debian.org/debian trixie/main amd64 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 53 http://deb.debian.org/debian trixie/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 54 http://deb.debian.org/debian trixie/main amd64 debhelper all 13.24.1 [920 kB]
Get: 55 http://deb.debian.org/debian trixie/main amd64 libbrotli1 amd64 1.1.0-2+b7 [307 kB]
Get: 56 http://deb.debian.org/debian trixie/main amd64 libpng16-16t64 amd64 1.6.47-1 [282 kB]
Get: 57 http://deb.debian.org/debian trixie/main amd64 libfreetype6 amd64 2.13.3+dfsg-1 [452 kB]
Get: 58 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 59 http://deb.debian.org/debian trixie/main amd64 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 60 http://deb.debian.org/debian trixie/main amd64 fontconfig-config amd64 2.15.0-2.1 [318 kB]
Get: 61 http://deb.debian.org/debian trixie/main amd64 libfontconfig1 amd64 2.15.0-2.1 [391 kB]
Get: 62 http://deb.debian.org/debian trixie/main amd64 fontconfig amd64 2.15.0-2.1 [463 kB]
Get: 63 http://deb.debian.org/debian trixie/main amd64 libkrb5support0 amd64 1.21.3-5 [33.0 kB]
Get: 64 http://deb.debian.org/debian trixie/main amd64 libk5crypto3 amd64 1.21.3-5 [81.5 kB]
Get: 65 http://deb.debian.org/debian trixie/main amd64 libkeyutils1 amd64 1.6.3-4 [9092 B]
Get: 66 http://deb.debian.org/debian trixie/main amd64 libkrb5-3 amd64 1.21.3-5 [326 kB]
Get: 67 http://deb.debian.org/debian trixie/main amd64 libgssapi-krb5-2 amd64 1.21.3-5 [138 kB]
Get: 68 http://deb.debian.org/debian trixie/main amd64 libgssrpc4t64 amd64 1.21.3-5 [60.0 kB]
Get: 69 http://deb.debian.org/debian trixie/main amd64 libkadm5clnt-mit12 amd64 1.21.3-5 [42.5 kB]
Get: 70 http://deb.debian.org/debian trixie/main amd64 libkdb5-10t64 amd64 1.21.3-5 [42.6 kB]
Get: 71 http://deb.debian.org/debian trixie/main amd64 libkadm5srv-mit12 amd64 1.21.3-5 [54.2 kB]
Get: 72 http://deb.debian.org/debian trixie/main amd64 krb5-multidev amd64 1.21.3-5 [126 kB]
Get: 73 http://deb.debian.org/debian trixie/main amd64 libbamtools2.5.2 amd64 2.5.2+dfsg-6+b1 [161 kB]
Get: 74 http://deb.debian.org/debian trixie/main amd64 zlib1g-dev amd64 1:1.3.dfsg+really1.3.1-1+b1 [920 kB]
Get: 75 http://deb.debian.org/debian trixie/main amd64 libbamtools-dev amd64 2.5.2+dfsg-6+b1 [222 kB]
Get: 76 http://deb.debian.org/debian trixie/main amd64 libblas3 amd64 3.12.1-2 [160 kB]
Get: 77 http://deb.debian.org/debian trixie/main amd64 libbrotli-dev amd64 1.1.0-2+b7 [316 kB]
Get: 78 http://deb.debian.org/debian trixie/main amd64 libbwa-dev amd64 0.7.18-1 [156 kB]
Get: 79 http://deb.debian.org/debian trixie/main amd64 libbz2-dev amd64 1.0.8-6 [31.4 kB]
Get: 80 http://deb.debian.org/debian trixie/main amd64 libpixman-1-0 amd64 0.44.0-3 [248 kB]
Get: 81 http://deb.debian.org/debian trixie/main amd64 libxau6 amd64 1:1.0.11-1 [20.4 kB]
Get: 82 http://deb.debian.org/debian trixie/main amd64 libxdmcp6 amd64 1:1.1.5-1 [27.8 kB]
Get: 83 http://deb.debian.org/debian trixie/main amd64 libxcb1 amd64 1.17.0-2+b1 [144 kB]
Get: 84 http://deb.debian.org/debian trixie/main amd64 libx11-data all 2:1.8.10-2 [337 kB]
Get: 85 http://deb.debian.org/debian trixie/main amd64 libx11-6 amd64 2:1.8.10-2 [813 kB]
Get: 86 http://deb.debian.org/debian trixie/main amd64 libxcb-render0 amd64 1.17.0-2+b1 [115 kB]
Get: 87 http://deb.debian.org/debian trixie/main amd64 libxcb-shm0 amd64 1.17.0-2+b1 [105 kB]
Get: 88 http://deb.debian.org/debian trixie/main amd64 libxext6 amd64 2:1.3.4-1+b3 [50.4 kB]
Get: 89 http://deb.debian.org/debian trixie/main amd64 libxrender1 amd64 1:0.9.10-1.1+b4 [27.8 kB]
Get: 90 http://deb.debian.org/debian trixie/main amd64 libcairo2 amd64 1.18.2-2 [535 kB]
Get: 91 http://deb.debian.org/debian trixie/main amd64 libidn2-0 amd64 2.3.8-1 [109 kB]
Get: 92 http://deb.debian.org/debian trixie/main amd64 libp11-kit0 amd64 0.25.5-3 [425 kB]
Get: 93 http://deb.debian.org/debian trixie/main amd64 libtasn1-6 amd64 4.20.0-2 [49.9 kB]
Get: 94 http://deb.debian.org/debian trixie/main amd64 libgnutls30t64 amd64 3.8.9-2 [1464 kB]
Get: 95 http://deb.debian.org/debian trixie/main amd64 libsasl2-modules-db amd64 2.1.28+dfsg1-9 [19.8 kB]
Get: 96 http://deb.debian.org/debian trixie/main amd64 libsasl2-2 amd64 2.1.28+dfsg1-9 [57.5 kB]
Get: 97 http://deb.debian.org/debian trixie/main amd64 libldap2 amd64 2.6.9+dfsg-1 [192 kB]
Get: 98 http://deb.debian.org/debian trixie/main amd64 libnghttp2-14 amd64 1.64.0-1 [75.5 kB]
Get: 99 http://deb.debian.org/debian trixie/main amd64 libnghttp3-9 amd64 1.8.0-1 [67.7 kB]
Get: 100 http://deb.debian.org/debian trixie/main amd64 libngtcp2-16 amd64 1.11.0-1 [131 kB]
Get: 101 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls8 amd64 1.11.0-1 [29.3 kB]
Get: 102 http://deb.debian.org/debian trixie/main amd64 libpsl5t64 amd64 0.21.2-1.1+b1 [57.2 kB]
Get: 103 http://deb.debian.org/debian trixie/main amd64 librtmp1 amd64 2.4+20151223.gitfa8646d.1-2+b5 [58.8 kB]
Get: 104 http://deb.debian.org/debian trixie/main amd64 libssh2-1t64 amd64 1.11.1-1 [245 kB]
Get: 105 http://deb.debian.org/debian trixie/main amd64 libcurl3t64-gnutls amd64 8.12.1-3 [365 kB]
Get: 106 http://deb.debian.org/debian trixie/main amd64 libevent-2.1-7t64 amd64 2.1.12-stable-10+b1 [182 kB]
Get: 107 http://deb.debian.org/debian trixie/main amd64 libunbound8 amd64 1.22.0-1+b1 [598 kB]
Get: 108 http://deb.debian.org/debian trixie/main amd64 libgnutls-dane0t64 amd64 3.8.9-2 [455 kB]
Get: 109 http://deb.debian.org/debian trixie/main amd64 libgnutls-openssl27t64 amd64 3.8.9-2 [455 kB]
Get: 110 http://deb.debian.org/debian trixie/main amd64 libidn2-dev amd64 2.3.8-1 [102 kB]
Get: 111 http://deb.debian.org/debian trixie/main amd64 libp11-kit-dev amd64 0.25.5-3 [208 kB]
Get: 112 http://deb.debian.org/debian trixie/main amd64 libtasn1-6-dev amd64 4.20.0-2 [99.2 kB]
Get: 113 http://deb.debian.org/debian trixie/main amd64 libgmpxx4ldbl amd64 2:6.3.0+dfsg-3 [329 kB]
Get: 114 http://deb.debian.org/debian trixie/main amd64 libgmp-dev amd64 2:6.3.0+dfsg-3 [642 kB]
Get: 115 http://deb.debian.org/debian trixie/main amd64 nettle-dev amd64 3.10.1-1 [1318 kB]
Get: 116 http://deb.debian.org/debian trixie/main amd64 libgnutls28-dev amd64 3.8.9-2 [1401 kB]
Get: 117 http://deb.debian.org/debian trixie/main amd64 libkrb5-dev amd64 1.21.3-5 [16.1 kB]
Get: 118 http://deb.debian.org/debian trixie/main amd64 libldap-dev amd64 2.6.9+dfsg-1 [307 kB]
Get: 119 http://deb.debian.org/debian trixie/main amd64 libpkgconf3 amd64 1.8.1-4 [36.4 kB]
Get: 120 http://deb.debian.org/debian trixie/main amd64 pkgconf-bin amd64 1.8.1-4 [30.2 kB]
Get: 121 http://deb.debian.org/debian trixie/main amd64 pkgconf amd64 1.8.1-4 [26.2 kB]
Get: 122 http://deb.debian.org/debian trixie/main amd64 libnghttp2-dev amd64 1.64.0-1 [115 kB]
Get: 123 http://deb.debian.org/debian trixie/main amd64 libnghttp3-dev amd64 1.8.0-1 [91.3 kB]
Get: 124 http://deb.debian.org/debian trixie/main amd64 libngtcp2-crypto-gnutls-dev amd64 1.11.0-1 [34.0 kB]
Get: 125 http://deb.debian.org/debian trixie/main amd64 libngtcp2-dev amd64 1.11.0-1 [179 kB]
Get: 126 http://deb.debian.org/debian trixie/main amd64 libpsl-dev amd64 0.21.2-1.1+b1 [77.6 kB]
Get: 127 http://deb.debian.org/debian trixie/main amd64 librtmp-dev amd64 2.4+20151223.gitfa8646d.1-2+b5 [68.0 kB]
Get: 128 http://deb.debian.org/debian trixie/main amd64 libssl-dev amd64 3.4.1-1 [2787 kB]
Get: 129 http://deb.debian.org/debian trixie/main amd64 libssh2-1-dev amd64 1.11.1-1 [393 kB]
Get: 130 http://deb.debian.org/debian trixie/main amd64 libzstd-dev amd64 1.5.6+dfsg-2 [365 kB]
Get: 131 http://deb.debian.org/debian trixie/main amd64 libcurl4-gnutls-dev amd64 8.12.1-3 [480 kB]
Get: 132 http://deb.debian.org/debian trixie/main amd64 libcurl4t64 amd64 8.12.1-3 [369 kB]
Get: 133 http://deb.debian.org/debian trixie/main amd64 libdatrie1 amd64 0.2.13-3+b1 [38.1 kB]
Get: 134 http://deb.debian.org/debian trixie/main amd64 libdeflate0 amd64 1.23-1+b1 [47.5 kB]
Get: 135 http://deb.debian.org/debian trixie/main amd64 libdeflate-dev amd64 1.23-1+b1 [56.0 kB]
Get: 136 http://deb.debian.org/debian trixie/main amd64 libdisorder0 amd64 0.0.2+git20130809.8062ee1-4+b2 [4908 B]
Get: 137 http://deb.debian.org/debian trixie/main amd64 libdisorder-dev amd64 0.0.2+git20130809.8062ee1-4+b2 [4912 B]
Get: 138 http://deb.debian.org/debian trixie/main amd64 libfastahack0 amd64 1.0.0+dfsg-11+b2 [26.4 kB]
Get: 139 http://deb.debian.org/debian trixie/main amd64 libfastahack-dev amd64 1.0.0+dfsg-11+b2 [27.9 kB]
Get: 140 http://deb.debian.org/debian trixie/main amd64 libfml0 amd64 0.1+git20221215.85f159e-1 [70.1 kB]
Get: 141 http://deb.debian.org/debian trixie/main amd64 libfml-dev amd64 0.1+git20221215.85f159e-1 [82.0 kB]
Get: 142 http://deb.debian.org/debian trixie/main amd64 libfribidi0 amd64 1.0.16-1 [26.5 kB]
Get: 143 http://deb.debian.org/debian trixie/main amd64 libgfortran5 amd64 14.2.0-17 [836 kB]
Get: 144 http://deb.debian.org/debian trixie/main amd64 libglib2.0-0t64 amd64 2.84.0-1 [1514 kB]
Get: 145 http://deb.debian.org/debian trixie/main amd64 libgraphite2-3 amd64 1.3.14-2+b1 [75.4 kB]
Get: 146 http://deb.debian.org/debian trixie/main amd64 libharfbuzz0b amd64 10.2.0-1+b1 [479 kB]
Get: 147 http://deb.debian.org/debian trixie/main amd64 libhtscodecs2 amd64 1.6.1-2 [95.8 kB]
Get: 148 http://deb.debian.org/debian trixie/main amd64 libhts3t64 amd64 1.21+ds-1 [463 kB]
Get: 149 http://deb.debian.org/debian trixie/main amd64 liblzma-dev amd64 5.6.4-1 [323 kB]
Get: 150 http://deb.debian.org/debian trixie/main amd64 libhts-dev amd64 1.21+ds-1 [1733 kB]
Get: 151 http://deb.debian.org/debian trixie/main amd64 x11-common all 1:7.7+24 [217 kB]
Get: 152 http://deb.debian.org/debian trixie/main amd64 libice6 amd64 2:1.1.1-1 [65.4 kB]
Get: 153 http://deb.debian.org/debian trixie/main amd64 libjbig0 amd64 2.1-6.1+b2 [32.1 kB]
Get: 154 http://deb.debian.org/debian trixie/main amd64 libjpeg62-turbo amd64 1:2.1.5-3.1 [168 kB]
Get: 155 http://deb.debian.org/debian trixie/main amd64 libjsoncpp26 amd64 1.9.6-3 [81.7 kB]
Get: 156 http://deb.debian.org/debian trixie/main amd64 libjsoncpp-dev amd64 1.9.6-3 [25.0 kB]
Get: 157 http://deb.debian.org/debian trixie/main amd64 liblapack3 amd64 3.12.1-2 [2452 kB]
Get: 158 http://deb.debian.org/debian trixie/main amd64 liblerc4 amd64 4.0.0+ds-5 [183 kB]
Get: 159 http://deb.debian.org/debian trixie/main amd64 libncurses6 amd64 6.5+20250216-2 [105 kB]
Get: 160 http://deb.debian.org/debian trixie/main amd64 libthai-data all 0.1.29-2 [168 kB]
Get: 161 http://deb.debian.org/debian trixie/main amd64 libthai0 amd64 0.1.29-2+b1 [49.4 kB]
Get: 162 http://deb.debian.org/debian trixie/main amd64 libpango-1.0-0 amd64 1.56.1-1 [226 kB]
Get: 163 http://deb.debian.org/debian trixie/main amd64 libpangoft2-1.0-0 amd64 1.56.1-1 [55.3 kB]
Get: 164 http://deb.debian.org/debian trixie/main amd64 libpangocairo-1.0-0 amd64 1.56.1-1 [35.8 kB]
Get: 165 http://deb.debian.org/debian trixie/main amd64 libpaper2 amd64 2.2.5-0.3+b1 [16.6 kB]
Get: 166 http://deb.debian.org/debian trixie/main amd64 libpaper-utils amd64 2.2.5-0.3+b1 [16.4 kB]
Get: 167 http://deb.debian.org/debian trixie/main amd64 libsensors-config all 1:3.6.0-10 [14.6 kB]
Get: 168 http://deb.debian.org/debian trixie/main amd64 libsensors5 amd64 1:3.6.0-10+b1 [35.1 kB]
Get: 169 http://deb.debian.org/debian trixie/main amd64 libssw0 amd64 1.1-15+b2 [21.8 kB]
Get: 170 http://deb.debian.org/debian trixie/main amd64 libseqlib2 amd64 1.2.0+dfsg-11+b3 [172 kB]
Get: 171 http://deb.debian.org/debian trixie/main amd64 libssw-dev amd64 1.1-15+b2 [24.6 kB]
Get: 172 http://deb.debian.org/debian trixie/main amd64 libseqlib-dev amd64 1.2.0+dfsg-11+b3 [221 kB]
Get: 173 http://deb.debian.org/debian trixie/main amd64 libsharpyuv0 amd64 1.5.0-0.1 [116 kB]
Get: 174 http://deb.debian.org/debian trixie/main amd64 libsm6 amd64 2:1.2.4-1 [35.2 kB]
Get: 175 http://deb.debian.org/debian trixie/main amd64 libsmithwaterman0 amd64 0.0+git20160702.2610e25-12+b2 [36.8 kB]
Get: 176 http://deb.debian.org/debian trixie/main amd64 libsmithwaterman-dev amd64 0.0+git20160702.2610e25-12+b2 [41.4 kB]
Get: 177 http://deb.debian.org/debian trixie/main amd64 libtabixpp0t64 amd64 1.1.2-2.1+b1 [10.3 kB]
Get: 178 http://deb.debian.org/debian trixie/main amd64 libtabixpp-dev amd64 1.1.2-2.1+b1 [9528 B]
Get: 179 http://deb.debian.org/debian trixie/main amd64 libtcl8.6 amd64 8.6.16+dfsg-1 [1042 kB]
Get: 180 http://deb.debian.org/debian trixie/main amd64 libwebp7 amd64 1.5.0-0.1 [318 kB]
Get: 181 http://deb.debian.org/debian trixie/main amd64 libtiff6 amd64 4.5.1+git230720-5 [324 kB]
Get: 182 http://deb.debian.org/debian trixie/main amd64 libtirpc-common all 1.3.4+ds-1.3 [10.9 kB]
Get: 183 http://deb.debian.org/debian trixie/main amd64 libtirpc3t64 amd64 1.3.4+ds-1.3+b1 [83.1 kB]
Get: 184 http://deb.debian.org/debian trixie/main amd64 libxft2 amd64 2.3.6-1+b4 [54.5 kB]
Get: 185 http://deb.debian.org/debian trixie/main amd64 libxss1 amd64 1:1.2.3-1+b3 [17.0 kB]
Get: 186 http://deb.debian.org/debian trixie/main amd64 libtk8.6 amd64 8.6.16-1 [793 kB]
Get: 187 http://deb.debian.org/debian trixie/main amd64 libwfa2-0 amd64 2.3.3-4+b2 [60.9 kB]
Get: 188 http://deb.debian.org/debian trixie/main amd64 libvcflib2 amd64 1.0.12+dfsg-1 [233 kB]
Get: 189 http://deb.debian.org/debian trixie/main amd64 libwfa2-dev amd64 2.3.3-4+b2 [79.7 kB]
Get: 190 http://deb.debian.org/debian trixie/main amd64 libvcflib-dev amd64 1.0.12+dfsg-1 [77.7 kB]
Get: 191 http://deb.debian.org/debian trixie/main amd64 zip amd64 3.0-14 [233 kB]
Get: 192 http://deb.debian.org/debian trixie/main amd64 unzip amd64 6.0-28 [166 kB]
Get: 193 http://deb.debian.org/debian trixie/main amd64 xdg-utils all 1.2.1-2 [75.8 kB]
Get: 194 http://deb.debian.org/debian trixie/main amd64 libxt6t64 amd64 1:1.2.1-1.2+b2 [188 kB]
Get: 195 http://deb.debian.org/debian trixie/main amd64 r-base-core amd64 4.4.2-1 [28.3 MB]
Get: 196 http://deb.debian.org/debian trixie/main amd64 r-cran-littler amd64 0.3.20-2 [103 kB]
Get: 197 http://deb.debian.org/debian trixie/main amd64 littler all 0.3.20-2 [16.0 kB]
Get: 198 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgkitten all 0.2.4-1 [29.1 kB]
Get: 199 http://deb.debian.org/debian trixie/main amd64 r-cran-rcpp amd64 1.0.14-1 [2080 kB]
Get: 200 http://deb.debian.org/debian trixie/main amd64 r-cran-plyr amd64 1.8.9-1 [832 kB]
Get: 201 http://deb.debian.org/debian trixie/main amd64 r-cran-cli amd64 3.6.4-1 [1370 kB]
Get: 202 http://deb.debian.org/debian trixie/main amd64 r-cran-glue amd64 1.8.0-1 [165 kB]
Get: 203 http://deb.debian.org/debian trixie/main amd64 r-cran-rlang amd64 1.1.5-1 [1712 kB]
Get: 204 http://deb.debian.org/debian trixie/main amd64 r-cran-lifecycle all 1.0.4+dfsg-1 [110 kB]
Get: 205 http://deb.debian.org/debian trixie/main amd64 r-cran-gtable all 0.3.6+dfsg-1 [228 kB]
Get: 206 http://deb.debian.org/debian trixie/main amd64 r-cran-isoband amd64 0.2.7-1 [1614 kB]
Get: 207 http://deb.debian.org/debian trixie/main amd64 r-cran-mass amd64 7.3-64-1 [1113 kB]
Get: 208 http://deb.debian.org/debian trixie/main amd64 r-cran-lattice amd64 0.22-6-1 [1392 kB]
Get: 209 http://deb.debian.org/debian trixie/main amd64 r-cran-nlme amd64 3.1.167-1 [2331 kB]
Get: 210 http://deb.debian.org/debian trixie/main amd64 r-cran-matrix amd64 1.7-2-1 [4155 kB]
Get: 211 http://deb.debian.org/debian trixie/main amd64 r-cran-mgcv amd64 1.9-1-1 [3233 kB]
Get: 212 http://deb.debian.org/debian trixie/main amd64 r-cran-farver amd64 2.1.2-1 [1411 kB]
Get: 213 http://deb.debian.org/debian trixie/main amd64 r-cran-labeling all 0.4.3-1 [62.4 kB]
Get: 214 http://deb.debian.org/debian trixie/main amd64 r-cran-colorspace amd64 2.1-1+dfsg-1 [1716 kB]
Get: 215 http://deb.debian.org/debian trixie/main amd64 r-cran-munsell all 0.5.1-1 [237 kB]
Get: 216 http://deb.debian.org/debian trixie/main amd64 r-cran-r6 all 2.6.1-1 [106 kB]
Get: 217 http://deb.debian.org/debian trixie/main amd64 r-cran-rcolorbrewer all 1.1-3-1 [54.7 kB]
Get: 218 http://deb.debian.org/debian trixie/main amd64 r-cran-viridislite all 0.4.2-2 [1299 kB]
Get: 219 http://deb.debian.org/debian trixie/main amd64 r-cran-scales all 1.3.0-1 [677 kB]
Get: 220 http://deb.debian.org/debian trixie/main amd64 r-cran-fansi amd64 1.0.5-1 [621 kB]
Get: 221 http://deb.debian.org/debian trixie/main amd64 r-cran-magrittr amd64 2.0.3-1 [201 kB]
Get: 222 http://deb.debian.org/debian trixie/main amd64 r-cran-utf8 amd64 1.2.4-1 [133 kB]
Get: 223 http://deb.debian.org/debian trixie/main amd64 r-cran-vctrs amd64 0.6.5-1 [1375 kB]
Get: 224 http://deb.debian.org/debian trixie/main amd64 r-cran-pillar all 1.10.1+dfsg-1 [453 kB]
Get: 225 http://deb.debian.org/debian trixie/main amd64 r-cran-pkgconfig all 2.0.3-2 [19.6 kB]
Get: 226 http://deb.debian.org/debian trixie/main amd64 r-cran-tibble amd64 3.2.1+dfsg-3 [425 kB]
Get: 227 http://deb.debian.org/debian trixie/main amd64 r-cran-withr all 3.0.2+dfsg-1 [226 kB]
Get: 228 http://deb.debian.org/debian trixie/main amd64 r-cran-ggplot2 all 3.5.1+dfsg-1 [3933 kB]
Get: 229 http://deb.debian.org/debian trixie/main amd64 r-cran-gridbase all 0.4-7-5 [163 kB]
Get: 230 http://deb.debian.org/debian trixie/main amd64 libvcflib-tools amd64 1.0.12+dfsg-1 [608 kB]
Get: 231 http://deb.debian.org/debian trixie/main amd64 ninja-build amd64 1.12.1-1 [142 kB]
Get: 232 http://deb.debian.org/debian trixie/main amd64 python3-autocommand all 2.2.2-3 [13.6 kB]
Get: 233 http://deb.debian.org/debian trixie/main amd64 python3-more-itertools all 10.6.0-1 [65.3 kB]
Get: 234 http://deb.debian.org/debian trixie/main amd64 python3-typing-extensions all 4.12.2-2 [73.0 kB]
Get: 235 http://deb.debian.org/debian trixie/main amd64 python3-typeguard all 4.4.2-1 [37.3 kB]
Get: 236 http://deb.debian.org/debian trixie/main amd64 python3-inflect all 7.3.1-2 [32.4 kB]
Get: 237 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.context all 6.0.1-1 [8276 B]
Get: 238 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.functools all 4.1.0-1 [12.0 kB]
Get: 239 http://deb.debian.org/debian trixie/main amd64 python3-pkg-resources all 75.8.0-1 [222 kB]
Get: 240 http://deb.debian.org/debian trixie/main amd64 python3-jaraco.text all 4.0.0-1 [11.4 kB]
Get: 241 http://deb.debian.org/debian trixie/main amd64 python3-zipp all 3.21.0-1 [10.6 kB]
Get: 242 http://deb.debian.org/debian trixie/main amd64 python3-setuptools all 75.8.0-1 [724 kB]
Get: 243 http://deb.debian.org/debian trixie/main amd64 meson all 1.7.0-1 [639 kB]
Get: 244 http://deb.debian.org/debian trixie/main amd64 sysstat amd64 12.7.5-2 [623 kB]
Get: 245 http://deb.debian.org/debian trixie/main amd64 parallel all 20240222+ds-2 [2163 kB]
Get: 246 http://deb.debian.org/debian trixie/main amd64 samtools amd64 1.21-1 [667 kB]
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Current default time zone: 'Etc/UTC'
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 -> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/freebayes-1.3.9/ && 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  > ../freebayes_1.3.9-1_source.changes
dpkg-buildpackage: info: source package freebayes
dpkg-buildpackage: info: source version 1.3.9-1
dpkg-buildpackage: info: source distribution unstable
dpkg-buildpackage: info: source changed by Andreas Tille <tille@debian.org>
 dpkg-source --before-build .
dpkg-buildpackage: info: host architecture amd64
 debian/rules clean
dh clean --buildsystem=meson --builddir=build
   dh_auto_clean -O--buildsystem=meson -O--builddir=build
   dh_autoreconf_clean -O--buildsystem=meson -O--builddir=build
   dh_clean -O--buildsystem=meson -O--builddir=build
 debian/rules binary
dh binary --buildsystem=meson --builddir=build
   dh_update_autotools_config -O--buildsystem=meson -O--builddir=build
   dh_autoreconf -O--buildsystem=meson -O--builddir=build
   debian/rules execute_before_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/freebayes-1.3.9'
cp -a debian/ext/* contrib/
make[1]: Leaving directory '/build/reproducible-path/freebayes-1.3.9'
   dh_auto_configure -O--buildsystem=meson -O--builddir=build
	cd build && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 meson setup .. --wrap-mode=nodownload --buildtype=plain --prefix=/usr --sysconfdir=/etc --localstatedir=/var --libdir=lib/x86_64-linux-gnu -Dpython.bytecompile=-1
The Meson build system
Version: 1.7.0
Source dir: /build/reproducible-path/freebayes-1.3.9
Build dir: /build/reproducible-path/freebayes-1.3.9/build
Build type: native build
Project name: freebayes
Project version: 1.3.9
C compiler for the host machine: cc (gcc 14.2.0 "cc (Debian 14.2.0-17) 14.2.0")
C linker for the host machine: cc ld.bfd 2.44
C++ compiler for the host machine: c++ (gcc 14.2.0 "c++ (Debian 14.2.0-17) 14.2.0")
C++ linker for the host machine: c++ ld.bfd 2.44
Host machine cpu family: x86_64
Host machine cpu: x86_64
Found pkg-config: YES (/usr/bin/pkg-config) 1.8.1
Run-time dependency liblzma found: YES 5.6.4
Run-time dependency threads found: YES
WARNING: find_library('libwfa2') starting in "lib" only works by accident and is not portable
Library libwfa2 found: YES
Run-time dependency zlib found: YES 1.3.1
Run-time dependency htslib found: YES 1.21
WARNING: find_library('libvcflib') starting in "lib" only works by accident and is not portable
Library libvcflib found: YES
Run-time dependency libseqlib found: YES 1.0
Library tabixpp found: YES
Message: Using /usr/include/vcflib dir
WARNING: find_library('libfastahack') starting in "lib" only works by accident and is not portable
Library libfastahack found: YES
WARNING: find_library('libsmithwaterman') starting in "lib" only works by accident and is not portable
Library libsmithwaterman found: YES
Message: Using /usr/include/fastahack dir
Compiler for C++ supports arguments -fpermissive: YES 
Compiler for C++ supports arguments -Wno-reorder: YES 
Compiler for C++ supports arguments -Wno-sign-compare: YES 
Compiler for C++ supports arguments -Wno-unused-variable: YES 
Compiler for C++ supports arguments -Wno-unused-but-set-variable: YES 
Program prove found: YES (/usr/bin/prove)
Build targets in project: 3

freebayes 1.3.9

  User defined options
    buildtype         : plain
    libdir            : lib/x86_64-linux-gnu
    localstatedir     : /var
    prefix            : /usr
    python.bytecompile: -1
    sysconfdir        : /etc
    wrap_mode         : nodownload

Found ninja-1.12.1 at /usr/bin/ninja
   dh_auto_build -O--buildsystem=meson -O--builddir=build
	cd build && LC_ALL=C.UTF-8 ninja -j42 -v
[1/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_SegfaultHandler.cpp.o -MF libfreebayes_common.a.p/src_SegfaultHandler.cpp.o.d -o libfreebayes_common.a.p/src_SegfaultHandler.cpp.o -c ../src/SegfaultHandler.cpp
[2/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_IndelAllele.cpp.o -MF libfreebayes_common.a.p/src_IndelAllele.cpp.o.d -o libfreebayes_common.a.p/src_IndelAllele.cpp.o -c ../src/IndelAllele.cpp
[3/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Bias.cpp.o -MF libfreebayes_common.a.p/src_Bias.cpp.o.d -o libfreebayes_common.a.p/src_Bias.cpp.o -c ../src/Bias.cpp
[4/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Contamination.cpp.o -MF libfreebayes_common.a.p/src_Contamination.cpp.o.d -o libfreebayes_common.a.p/src_Contamination.cpp.o -c ../src/Contamination.cpp
[5/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Dirichlet.cpp.o -MF libfreebayes_common.a.p/src_Dirichlet.cpp.o.d -o libfreebayes_common.a.p/src_Dirichlet.cpp.o -c ../src/Dirichlet.cpp
[6/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Multinomial.cpp.o -MF libfreebayes_common.a.p/src_Multinomial.cpp.o.d -o libfreebayes_common.a.p/src_Multinomial.cpp.o -c ../src/Multinomial.cpp
[7/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Ewens.cpp.o -MF libfreebayes_common.a.p/src_Ewens.cpp.o.d -o libfreebayes_common.a.p/src_Ewens.cpp.o -c ../src/Ewens.cpp
[8/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Result.cpp.o -MF libfreebayes_common.a.p/src_Result.cpp.o.d -o libfreebayes_common.a.p/src_Result.cpp.o -c ../src/Result.cpp
[9/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_CNV.cpp.o -MF libfreebayes_common.a.p/src_CNV.cpp.o.d -o libfreebayes_common.a.p/src_CNV.cpp.o -c ../src/CNV.cpp
[10/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_NonCall.cpp.o -MF libfreebayes_common.a.p/src_NonCall.cpp.o.d -o libfreebayes_common.a.p/src_NonCall.cpp.o -c ../src/NonCall.cpp
[11/27] c++ -Ibamleftalign.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ bamleftalign.p/src_bamleftalign.cpp.o -MF bamleftalign.p/src_bamleftalign.cpp.o.d -o bamleftalign.p/src_bamleftalign.cpp.o -c ../src/bamleftalign.cpp
[12/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_BedReader.cpp.o -MF libfreebayes_common.a.p/src_BedReader.cpp.o.d -o libfreebayes_common.a.p/src_BedReader.cpp.o -c ../src/BedReader.cpp
In file included from ../src/BedReader.cpp:14:
/usr/include/SeqLib/IntervalTree.h:85:5: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor]
   85 |     ~TIntervalTree<T,K>() {
      |     ^
/usr/include/SeqLib/IntervalTree.h:85:5: note: remove the ‘< >’
/usr/include/SeqLib/IntervalTree.h:92:23: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   92 |     TIntervalTree<T,K>(void)
      |                       ^
/usr/include/SeqLib/IntervalTree.h:92:23: note: remove the ‘< >’
/usr/include/SeqLib/IntervalTree.h:104:23: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
  104 |     TIntervalTree<T,K>(const intervalTree& other)
      |                       ^
/usr/include/SeqLib/IntervalTree.h:104:23: note: remove the ‘< >’
/usr/include/SeqLib/IntervalTree.h:124:13: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
  124 |             intervalVector& ivals,
      |             ^~~~~~~~~~~~~~
/usr/include/SeqLib/IntervalTree.h:124:13: note: remove the ‘< >’
[13/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Parameters.cpp.o -MF libfreebayes_common.a.p/src_Parameters.cpp.o.d -o libfreebayes_common.a.p/src_Parameters.cpp.o -c ../src/Parameters.cpp
[14/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_LeftAlign.cpp.o -MF libfreebayes_common.a.p/src_LeftAlign.cpp.o.d -o libfreebayes_common.a.p/src_LeftAlign.cpp.o -c ../src/LeftAlign.cpp
[15/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Sample.cpp.o -MF libfreebayes_common.a.p/src_Sample.cpp.o.d -o libfreebayes_common.a.p/src_Sample.cpp.o -c ../src/Sample.cpp
[16/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_FBFasta.cpp.o -MF libfreebayes_common.a.p/src_FBFasta.cpp.o.d -o libfreebayes_common.a.p/src_FBFasta.cpp.o -c ../src/FBFasta.cpp
../src/FBFasta.cpp: In member function ‘std::string FB::FastaReference::getRawSequence(std::string)’:
../src/FBFasta.cpp:273:20: warning: pointer ‘pbegin’ used after ‘void free(void*)’ [-Wuse-after-free]
  273 |     s.resize((pend - pbegin)/sizeof(char));
      |               ~~~~~^~~~~~~~
../src/FBFasta.cpp:272:9: note: call to ‘void free(void*)’ here
  272 |     free(seq);
      |     ~~~~^~~~~
../src/FBFasta.cpp: In member function ‘std::string FB::FastaReference::getRawSubSequence(std::string, int, int)’:
../src/FBFasta.cpp:316:20: warning: pointer ‘pbegin’ used after ‘void free(void*)’ [-Wuse-after-free]
  316 |     s.resize((pend - pbegin)/sizeof(char));
      |               ~~~~~^~~~~~~~
../src/FBFasta.cpp:315:9: note: call to ‘void free(void*)’ here
  315 |     free(seq);
      |     ~~~~^~~~~
[17/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Marginals.cpp.o -MF libfreebayes_common.a.p/src_Marginals.cpp.o.d -o libfreebayes_common.a.p/src_Marginals.cpp.o -c ../src/Marginals.cpp
[18/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_DataLikelihood.cpp.o -MF libfreebayes_common.a.p/src_DataLikelihood.cpp.o.d -o libfreebayes_common.a.p/src_DataLikelihood.cpp.o -c ../src/DataLikelihood.cpp
[19/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Utility.cpp.o -MF libfreebayes_common.a.p/src_Utility.cpp.o.d -o libfreebayes_common.a.p/src_Utility.cpp.o -c ../src/Utility.cpp
[20/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Allele.cpp.o -MF libfreebayes_common.a.p/src_Allele.cpp.o.d -o libfreebayes_common.a.p/src_Allele.cpp.o -c ../src/Allele.cpp
[21/27] c++ -Ifreebayes.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ freebayes.p/src_freebayes.cpp.o -MF freebayes.p/src_freebayes.cpp.o.d -o freebayes.p/src_freebayes.cpp.o -c ../src/freebayes.cpp
[22/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_ResultData.cpp.o -MF libfreebayes_common.a.p/src_ResultData.cpp.o.d -o libfreebayes_common.a.p/src_ResultData.cpp.o -c ../src/ResultData.cpp
[23/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_Genotype.cpp.o -MF libfreebayes_common.a.p/src_Genotype.cpp.o.d -o libfreebayes_common.a.p/src_Genotype.cpp.o -c ../src/Genotype.cpp
In file included from ../src/Genotype.cpp:3:
../contrib/multichoose/multipermute.h:47:19: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   47 |     ListElement<T>() { }
      |                   ^
../contrib/multichoose/multipermute.h:47:19: note: remove the ‘< >’
../contrib/multichoose/multipermute.h:49:20: warning: template-id not allowed for constructor in C++20 [-Wtemplate-id-cdtor]
   49 |     ListElement<T>(T val, ListElement<T>* n) {
      |                    ^
../contrib/multichoose/multipermute.h:49:20: note: remove the ‘< >’
../contrib/multichoose/multipermute.h:64:5: warning: template-id not allowed for destructor in C++20 [-Wtemplate-id-cdtor]
   64 |     ~ListElement<T>() {
      |     ^
../contrib/multichoose/multipermute.h:64:5: note: remove the ‘< >’
[24/27] c++ -Ilibfreebayes_common.a.p -I. -I.. -I../src -I../contrib/ttmath -I../contrib/multichoose -I/usr/include/vcflib -I/usr/include/fastahack -I/usr/include/SeqLib -I/usr/include/jsoncpp -fdiagnostics-color=always -D_GLIBCXX_ASSERTIONS=1 -D_FILE_OFFSET_BITS=64 -Wall -Winvalid-pch -std=c++17 -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -fPIC -pthread -fpermissive -Wno-reorder -Wno-sign-compare -Wno-unused-variable -Wno-unused-but-set-variable -MD -MQ libfreebayes_common.a.p/src_AlleleParser.cpp.o -MF libfreebayes_common.a.p/src_AlleleParser.cpp.o.d -o libfreebayes_common.a.p/src_AlleleParser.cpp.o -c ../src/AlleleParser.cpp
[25/27] rm -f libfreebayes_common.a && gcc-ar csrDT libfreebayes_common.a libfreebayes_common.a.p/src_Allele.cpp.o libfreebayes_common.a.p/src_AlleleParser.cpp.o libfreebayes_common.a.p/src_BedReader.cpp.o libfreebayes_common.a.p/src_Bias.cpp.o libfreebayes_common.a.p/src_CNV.cpp.o libfreebayes_common.a.p/src_Contamination.cpp.o libfreebayes_common.a.p/src_DataLikelihood.cpp.o libfreebayes_common.a.p/src_Dirichlet.cpp.o libfreebayes_common.a.p/src_Ewens.cpp.o libfreebayes_common.a.p/src_FBFasta.cpp.o libfreebayes_common.a.p/src_Genotype.cpp.o libfreebayes_common.a.p/src_IndelAllele.cpp.o libfreebayes_common.a.p/src_LeftAlign.cpp.o libfreebayes_common.a.p/src_Marginals.cpp.o libfreebayes_common.a.p/src_Multinomial.cpp.o libfreebayes_common.a.p/src_NonCall.cpp.o libfreebayes_common.a.p/src_Parameters.cpp.o libfreebayes_common.a.p/src_Result.cpp.o libfreebayes_common.a.p/src_ResultData.cpp.o libfreebayes_common.a.p/src_Sample.cpp.o libfreebayes_common.a.p/src_SegfaultHandler.cpp.o libfreebayes_common.a.p/src_Utility.cpp.o
[26/27] c++  -o bamleftalign bamleftalign.p/src_bamleftalign.cpp.o -I/usr/include/fastahack -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group libfreebayes_common.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/liblzma.so -pthread /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libvcflib.so /usr/lib/x86_64-linux-gnu/libseqlib.so /usr/lib/libbwa.a /usr/lib/x86_64-linux-gnu/libfastahack.so /usr/lib/x86_64-linux-gnu/libsmithwaterman.so /usr/lib/x86_64-linux-gnu/libwfa2.so /usr/lib/x86_64-linux-gnu/libtabixpp.so -Wl,--end-group
[27/27] c++  -o freebayes freebayes.p/src_freebayes.cpp.o -I/usr/include/fastahack -Wl,--as-needed -Wl,--no-undefined -Wl,-z,relro -Wl,-z,now -g -O2 -ffile-prefix-map=/build/reproducible-path/freebayes-1.3.9=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2 -Wl,--start-group libfreebayes_common.a /usr/lib/x86_64-linux-gnu/libz.so /usr/lib/x86_64-linux-gnu/liblzma.so -pthread /usr/lib/x86_64-linux-gnu/libhts.so /usr/lib/x86_64-linux-gnu/libtabixpp.so /usr/lib/x86_64-linux-gnu/libvcflib.so /usr/lib/x86_64-linux-gnu/libseqlib.so /usr/lib/libbwa.a /usr/lib/x86_64-linux-gnu/libfastahack.so /usr/lib/x86_64-linux-gnu/libsmithwaterman.so /usr/lib/x86_64-linux-gnu/libwfa2.so -Wl,--end-group
   debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/freebayes-1.3.9'
mkdir -p test/bash-tap/
ln -s -t test/bash-tap /build/reproducible-path/freebayes-1.3.9/debian/bash-tap/*
mkdir -p test/test-simple-bash
ln -s -t test/test-simple-bash /build/reproducible-path/freebayes-1.3.9/debian/test-simple-bash/*
dh_auto_test -- -v --timeout-multiplier 100
	cd build && DEB_PYTHON_INSTALL_LAYOUT=deb LC_ALL=C.UTF-8 MESON_TESTTHREADS=42 meson test --verbose -v --timeout-multiplier 100
ninja: Entering directory `/build/reproducible-path/freebayes-1.3.9/build'
ninja: no work to do.
1/5 T00  RUNNING       
>>> MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 MALLOC_PERTURB_=170 /usr/bin/prove -e bash -v t/00_region_and_target_handling.t

2/5 T01  RUNNING       
>>> MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=146 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 /usr/bin/prove -e bash -v t/01_call_variants.t

3/5 T01b RUNNING       
>>> MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=53 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 /usr/bin/prove -e bash -v t/01b_call_variants.t

4/5 T02  RUNNING       
>>> MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 MALLOC_PERTURB_=198 /usr/bin/prove -e bash -v t/02_multi_bam.t

5/5 T03  RUNNING       
>>> MSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 MALLOC_PERTURB_=124 UBSAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1:print_stacktrace=1 ASAN_OPTIONS=halt_on_error=1:abort_on_error=1:print_summary=1 MESON_TEST_ITERATION=1 /usr/bin/prove -e bash -v t/03_reference_bases.t

1/5 T00  OK                0.98s
――――――――――――――――――――――――――――――――――――― ✀  ―――――――――――――――――――――――――――――――――――――
t/00_region_and_target_handling.t .. 
1..12
ok 1 - ref:4-5 ref:6-7 are empty
ok 2 - ref:4 ref:6 are empty
ok 3 - ref:5-6 ref:7-8
ok 4 - ref:5 ref:7
ok 5 - ref:5-
ok 6 - full output
ok 7 - --targets t/../00_region_and_target_handling.t.bed
ok 8 - --region ref
ok 9 - ref:1,0-
ok 10 - ref:1,0-1,1
ok 11 - ref:0-1
ok 12 - region outside of bounds error
ok
All tests successful.
Files=1, Tests=12,  1 wallclock secs ( 0.03 usr  0.00 sys +  0.12 cusr  0.06 csys =  0.21 CPU)
Result: PASS
――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――

5/5 T03  OK                1.80s
――――――――――――――――――――――――――――――――――――― ✀  ―――――――――――――――――――――――――――――――――――――
t/03_reference_bases.t .. 
1..3
ok 1 - freebayes rejects invalid reference
ok 2 - freebayes does not put uppercase IUPAC bases in VCFs
ok 3 - freebayes does not put lowercase IUPAC bases in VCFs
ok
All tests successful.
Files=1, Tests=3,  2 wallclock secs ( 0.03 usr  0.00 sys +  0.09 cusr  0.01 csys =  0.13 CPU)
Result: PASS
――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――

3/5 T01b OK                4.07s
――――――――――――――――――――――――――――――――――――― ✀  ―――――――――――――――――――――――――――――――――――――
t/01b_call_variants.t .. 
1..10
ok 1 - running in parallel makes no difference
ok 2 - freebayes handles spaces in file names
ok 3 - freebayes handles region and variant input even with : in contig names
ok 4 - freebayes can handle spliced reads
ok 5 - freebayes produces the expected number of lines of gVCF output
ok 6 - freebayes produces the expected number of lines of gVCF output
ok 7 - freebayes produces the expected number of lines of gVCF output
ok 8 - the CNV map may be used to specify per-sample copy numbers
ok 9 - freebayes makes the expected number of calls when capping coverage
ok 10 - freebayes correctly uses CNV map with multiple entries
ok
All tests successful.
Files=1, Tests=10,  4 wallclock secs ( 0.03 usr  0.00 sys +  3.37 cusr  0.42 csys =  3.82 CPU)
Result: PASS
――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――

4/5 T02  OK                5.37s
――――――――――――――――――――――――――――――――――――― ✀  ―――――――――――――――――――――――――――――――――――――
t/02_multi_bam.t .. 
1..7
ok 1 - freebayes calls from two identical BAMs
ok 2 - freebayes calls from two BAMs with different samples for different read groups
ok 3 - freebayes calls from two BAMs with different technologies for different read groups
ok 4 - freebayes rejects two BAMs with different samples for same read groups
ok 5 - freebayes rejects two BAMs with different technologies for same read groups
ok 6 - freebayes calls multiple alts from two different BAMs
ok 7 - freebayes rejects two BAMs with the same name
ok
All tests successful.
Files=1, Tests=7,  5 wallclock secs ( 0.02 usr  0.00 sys +  0.10 cusr  0.10 csys =  0.22 CPU)
Result: PASS
――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――――

2/5 T01  OK                9.11s
――――――――――――――――――――――――――――――――――――― ✀  ―――――――――――――――――――――――――――――――――――――
stdout:
t/01_call_variants.t .. 
1..16
ok 1 - variant calling recovers most of the GiAB variants in a test region
ok 2 - freebayes produces the same number of calls if targeted per site or called without targets
ok 3 - a targets bed file can be used with the same effect as running by region
ok 4 - reading from stdin or not makes no difference
ok 5 - freebayes processes all alignments in BAM input
ok 6 - freebayes processes all alignments in CRAM input
ok 7 - freebayes correctly handles variant input
ok 8 - freebayes puts required variants in output
ok 9 - freebayes limits calls to input variants correctly
ok 10 - freebayes reports all input variants even when there is no input data
ok 11 - freebayes handles region and variant input
ok 12 - freebayes limits to variant input correctly when region is given
ok 13 - freebayes handles variant input and reading from stdin
ok 14 - freebayes limits to variant input when reading from stdin
ok 15 - freebayes handles region, stdin, and variant input
ok 16 - !
ok
All tests successful.
Files=1, Tests=16,  9 wallclock secs ( 0.03 usr  0.00 sys +  7.56 cusr  4.97 csys = 12.56 CPU)
Result: PASS
stderr:
[E::idx_find_and_load] Could not retrieve index file for '-'
Random access with SetRegion not available for STDIN reading (no index file)
ERROR(freebayes): Could not SetRegion to q:1..10000
t/01_call_variants.t: line 108: 3461785 Aborted                 freebayes -f tiny/q.fa.gz -@ tiny/q_spiked.vcf.gz -r q:1-10000 -l - < tiny/NA12878.chr22.tiny.bam > /dev/null 2> /dev/null
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Ok:                 5   
Expected Fail:      0   
Fail:               0   
Unexpected Pass:    0   
Skipped:            0   
Timeout:            0   

Full log written to /build/reproducible-path/freebayes-1.3.9/build/meson-logs/testlog.txt
find . -name core -delete
rm -Rf test/bash-tap
rm -Rf test/test-simple-bash
make[1]: Leaving directory '/build/reproducible-path/freebayes-1.3.9'
   create-stamp debian/debhelper-build-stamp
   dh_testroot -O--buildsystem=meson -O--builddir=build
   dh_prep -O--buildsystem=meson -O--builddir=build
   dh_auto_install --destdir=debian/freebayes/ -O--buildsystem=meson -O--builddir=build
	cd build && DESTDIR=/build/reproducible-path/freebayes-1.3.9/debian/freebayes LC_ALL=C.UTF-8 ninja install
[0/1] Installing files
Installing freebayes to /build/reproducible-path/freebayes-1.3.9/debian/freebayes/usr/bin
Installing bamleftalign to /build/reproducible-path/freebayes-1.3.9/debian/freebayes/usr/bin
   dh_install -O--buildsystem=meson -O--builddir=build
   dh_installdocs -O--buildsystem=meson -O--builddir=build
   dh_installchangelogs -O--buildsystem=meson -O--builddir=build
   dh_installexamples -O--buildsystem=meson -O--builddir=build
   dh_installsystemduser -O--buildsystem=meson -O--builddir=build
   dh_perl -O--buildsystem=meson -O--builddir=build
   dh_link -O--buildsystem=meson -O--builddir=build
   dh_strip_nondeterminism -O--buildsystem=meson -O--builddir=build
   dh_compress -O--buildsystem=meson -O--builddir=build
   dh_fixperms -O--buildsystem=meson -O--builddir=build
   dh_missing -O--buildsystem=meson -O--builddir=build
   dh_dwz -a -O--buildsystem=meson -O--builddir=build
   dh_strip -a -O--buildsystem=meson -O--builddir=build
   dh_makeshlibs -a -O--buildsystem=meson -O--builddir=build
   dh_shlibdeps -a -O--buildsystem=meson -O--builddir=build
   dh_installdeb -O--buildsystem=meson -O--builddir=build
   dh_gencontrol -O--buildsystem=meson -O--builddir=build
dpkg-gencontrol: warning: package freebayes: substitution variable ${perl:Depends} unused, but is defined
dpkg-gencontrol: warning: package freebayes: substitution variable ${perl:Depends} unused, but is defined
   dh_md5sums -O--buildsystem=meson -O--builddir=build
   dh_builddeb -O--buildsystem=meson -O--builddir=build
dpkg-deb: building package 'freebayes-dbgsym' in '../freebayes-dbgsym_1.3.9-1_amd64.deb'.
dpkg-deb: building package 'freebayes' in '../freebayes_1.3.9-1_amd64.deb'.
 dpkg-genbuildinfo --build=binary -O../freebayes_1.3.9-1_amd64.buildinfo
 dpkg-genchanges --build=binary -O../freebayes_1.3.9-1_amd64.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: including full 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/3446840 and its subdirectories
I: Current time: Sat Apr 18 09:11:55 -12 2026
I: pbuilder-time-stamp: 1776546715
Sun Mar 16 14:48:57 UTC 2025  I: 1st build successful. Starting 2nd build on remote node ionos1-amd64.debian.net.
Sun Mar 16 14:48:57 UTC 2025  I: Preparing to do remote build '2' on ionos1-amd64.debian.net.
Sun Mar 16 14:58:42 UTC 2025  I: Deleting $TMPDIR on ionos1-amd64.debian.net.
Sun Mar 16 14:58:43 UTC 2025  I: freebayes_1.3.9-1_amd64.changes:
Format: 1.8
Date: Sun, 16 Feb 2025 16:26:52 +0100
Source: freebayes
Binary: freebayes freebayes-dbgsym
Architecture: amd64
Version: 1.3.9-1
Distribution: unstable
Urgency: medium
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
 freebayes  - Bayesian haplotype-based polymorphism discovery and genotyping
Closes: 1067271
Changes:
 freebayes (1.3.9-1) unstable; urgency=medium
 .
   [ Michael R. Crusoe ]
   * d/watch: mangle pre-release tags appropriately
   * d/control: pkg-config → pkgconf
   * d/ext/multichoose: bundle in library missing from tarball.
   * d/ext/multichoose: update to
     https://github.com/vcflib/multichoose/commit/255192edd49cfe36557f7f4
     f0d2d6ee1c702ffbb
   * d/clean: added more entries
 .
   [ Andreas Tille ]
   * New upstream version
   * Bumped version in Build-Depends: libvcflib-dev (>= 1.0.12~)
     Closes: #1067271
   * Standards-Version: 4.7.0 (routine-update)
   * d/watch: Fix download file name
Checksums-Sha1:
 a74969b16b5ff32a18ffc69290a86aabaac64540 6982788 freebayes-dbgsym_1.3.9-1_amd64.deb
 49e4a18dda633a6d815cdacb7a675f4b284b1a11 11586 freebayes_1.3.9-1_amd64.buildinfo
 e61fb9ea9a23e2dc5ba75d200f0fb72657ec7d00 1523236 freebayes_1.3.9-1_amd64.deb
Checksums-Sha256:
 c0636fee2cf483f51043361793028bbfafd7d12e4120004e2bf003e792913f7b 6982788 freebayes-dbgsym_1.3.9-1_amd64.deb
 3a44b7bbd0d82779e2d8eb02106a27aecd5f0d2a55fb26a82b21dd62412b2198 11586 freebayes_1.3.9-1_amd64.buildinfo
 200682bca019bc76ab1542099105d166c20e71ac90f5ba8bdb56387b8626c64f 1523236 freebayes_1.3.9-1_amd64.deb
Files:
 1fdc50e3d52fe5814a42f8c8399de212 6982788 debug optional freebayes-dbgsym_1.3.9-1_amd64.deb
 98376d3445d25bd83f24b50a8444347f 11586 science optional freebayes_1.3.9-1_amd64.buildinfo
 b9d6fcab1c0751fcfa4d9c12fa71ebbc 1523236 science optional freebayes_1.3.9-1_amd64.deb
Sun Mar 16 14:58:44 UTC 2025  I: diffoscope 289 will be used to compare the two builds:
Running as unit: rb-diffoscope-amd64_10-33231.service
# Profiling output for: /usr/bin/diffoscope --timeout 7200 --html /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/freebayes_1.3.9-1.diffoscope.html --text /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/freebayes_1.3.9-1.diffoscope.txt --json /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/freebayes_1.3.9-1.diffoscope.json --profile=- /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/b1/freebayes_1.3.9-1_amd64.changes /srv/reproducible-results/rbuild-debian/r-b-build.HVm22H36/b2/freebayes_1.3.9-1_amd64.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
Service runtime: 225ms
CPU time consumed: 226ms
Sun Mar 16 14:58:44 UTC 2025  I: diffoscope 289 found no differences in the changes files, and a .buildinfo file also exists.
Sun Mar 16 14:58:44 UTC 2025  I: freebayes from trixie built successfully and reproducibly on amd64.
Sun Mar 16 14:58:46 UTC 2025  I: Submitting .buildinfo files to external archives:
Sun Mar 16 14:58:46 UTC 2025  I: Submitting 16K	b1/freebayes_1.3.9-1_amd64.buildinfo.asc
Sun Mar 16 14:58:47 UTC 2025  I: Submitting 16K	b2/freebayes_1.3.9-1_amd64.buildinfo.asc
Sun Mar 16 14:58:48 UTC 2025  I: Done submitting .buildinfo files to http://buildinfo.debian.net/api/submit.
Sun Mar 16 14:58:48 UTC 2025  I: Done submitting .buildinfo files.
Sun Mar 16 14:58:48 UTC 2025  I: Removing signed freebayes_1.3.9-1_amd64.buildinfo.asc files:
removed './b1/freebayes_1.3.9-1_amd64.buildinfo.asc'
removed './b2/freebayes_1.3.9-1_amd64.buildinfo.asc'