Input buildinfo: https://buildinfos.debian.net/buildinfo-pool/p/pigx-rnaseq/pigx-rnaseq_0.0.19-2_all.buildinfo Use metasnap for getting required timestamps New buildinfo file: /tmp/pigx-rnaseq-0.0.19-2g6ktumch/pigx-rnaseq_0.0.19-2_all.buildinfo Get source package info: pigx-rnaseq=0.0.19-2 Source URL: http://snapshot.notset.fr/mr/package/pigx-rnaseq/0.0.19-2/srcfiles?fileinfo=1 env -i PATH=/usr/sbin:/usr/bin:/sbin:/bin TMPDIR=/tmp mmdebstrap --arch=amd64 --include=ant=1.10.11-1 ant-optional=1.10.11-1 autoconf=2.71-2 automake=1:1.16.5-1 autopoint=0.21-4 autotools-dev=20180224.1+nmu1 base-files=12 base-passwd=3.5.52 bash=5.1-3+b2 binutils=2.37-7 binutils-common=2.37-7 binutils-x86-64-linux-gnu=2.37-7 bsdextrautils=2.37.2-4 bsdutils=1:2.37.2-4 build-essential=12.9 bzip2=1.0.8-4 ca-certificates=20211016 ca-certificates-java=20190909 coinor-cbc=2.10.5+ds1-3 coinor-libcbc3=2.10.5+ds1-3 coinor-libcgl1=0.60.3+repack1-3 coinor-libclp1=1.17.5+repack1-1 coinor-libcoinutils3v5=2.11.4+repack1-2 coinor-libosi1v5=0.108.6+repack1-2 coreutils=8.32-4+b1 cpp=4:11.2.0-2 cpp-11=11.2.0-10 cutadapt=3.5-1 dash=0.5.11+git20210120+802ebd4-1 debconf=1.5.77 debhelper=13.5.2 debianutils=5.5-1 default-jre=2:1.11-72 default-jre-headless=2:1.11-72 dh-autoreconf=20 dh-strip-nondeterminism=1.12.0-2 diffutils=1:3.7-5 docutils-common=0.17.1+dfsg-2 dpkg=1.20.9 dpkg-dev=1.20.9 dwz=0.14-1 fastp=0.23.0+dfsg-1 fastqc=0.11.9+dfsg-5 file=1:5.39-3 findutils=4.8.0-1 fontconfig=2.13.1-4.2 fontconfig-config=2.13.1-4.2 fonts-dejavu-core=2.37-2 fonts-font-awesome=5.0.10+really4.7.0~dfsg-4.1 fonts-glyphicons-halflings=1.009~3.4.1+dfsg-2 fonts-lato=2.0-2.1 fonts-lyx=2.3.6-1 fonts-mathjax=2.7.9+dfsg-1 g++=4:11.2.0-2 g++-11=11.2.0-10 gcc=4:11.2.0-2 gcc-10-base=10.3.0-11 gcc-11=11.2.0-10 gcc-11-base=11.2.0-10 gettext=0.21-4 gettext-base=0.21-4 gir1.2-glib-2.0=1.70.0-2 git=1:2.33.0-1 git-man=1:2.33.0-1 grep=3.7-1 groff-base=1.22.4-7 gzip=1.10-4 hisat2=2.2.1-3 hostname=3.23 init-system-helpers=1.60 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node-wcwidth.js=1.0.0-1.1 node-which=2.0.2+~cs1.3.2-1 node-which-module=2.0.0-2 node-wide-align=1.1.3-3 node-wrap-ansi=4.0.0-4 node-wrappy=1.0.2-1.1 node-y18n=4.0.0-4 node-yargs=15.3.1+repack-2 node-yargs-parser=18.1.3+~15.0.0-1 nodejs=12.22.7~dfsg-2 openjdk-11-jre=11.0.13+8-1 openjdk-11-jre-headless=11.0.13+8-1 openssl=1.1.1l-1 pandoc=2.9.2.1-1+b2 pandoc-citeproc=0.17.0.1-1+b2 pandoc-data=2.9.2.1-1 patch=2.7.6-7 perl=5.32.1-6 perl-base=5.32.1-6 perl-modules-5.32=5.32.1-6 pigz=2.6-1 po-debconf=1.0.21+nmu1 python-babel-localedata=2.8.0+dfsg.1-7 python-matplotlib-data=3.3.4-2 python3=3.9.2-3 python3-adal=1.2.2-1 python3-aiohttp=3.7.4-1 python3-alabaster=0.7.12-1 python3-all=3.9.2-3 python3-appdirs=1.4.4-1 python3-async-timeout=3.0.1-1.1 python3-attr=20.3.0-1 python3-avro=1.10.2+dfsg-1 python3-azure=20201208+git-6 python3-azure-storage=20201208+git-6 python3-babel=2.8.0+dfsg.1-7 python3-bcrypt=3.2.0-1 python3-blinker=1.4+dfsg1-0.3 python3-boto3=1.18.53+dfsg-1 python3-botocore=1.21.53+repack-1 python3-certifi=2020.6.20-1 python3-cffi-backend=1.15.0-1 python3-chardet=4.0.0-1 python3-click=8.0.2-1 python3-colorama=0.4.4-1 python3-coloredlogs=7.3-2 python3-colormath=3.0.0-1.1 python3-commonmark=0.9.1-3 python3-configargparse=1.2.3-1 python3-cryptography=3.3.2-1 python3-cutadapt=3.5-1 python3-cycler=0.10.0-3 python3-dateutil=2.8.1-6 python3-datrie=0.8.2-1+b1 python3-decorator=4.4.2-2 python3-deeptools=3.5.1-1 python3-deeptoolsintervals=0.1.9-3+b2 python3-distutils=3.9.7-1 python3-dnaio=0.6.0-1 python3-docutils=0.17.1+dfsg-2 python3-filelock=3.0.12-2 python3-future=0.18.2-5 python3-gi=3.42.0-1+b1 python3-git=3.1.23-1 python3-gitdb=4.0.7-1 python3-htseq=0.13.5-1 python3-humanfriendly=10.0-1 python3-idna=2.10-1 python3-imagesize=1.2.0-2 python3-importlib-metadata=4.6.4-1 python3-ipython-genutils=0.2.0-5 python3-isodate=0.6.0-2 python3-jinja2=3.0.1-2 python3-jmespath=0.10.0-1 python3-jsonschema=3.2.0-3 python3-jupyter-core=4.8.0-1 python3-jwt=2.1.0-1 python3-kiwisolver=1.3.2-1 python3-lib2to3=3.9.7-1 python3-lzstring=1.0.4-1.1 python3-markdown=3.3.4-1 python3-markupsafe=2.0.1-2 python3-matplotlib=3.3.4-2 python3-minimal=3.9.2-3 python3-more-itertools=4.2.0-3 python3-msal=1.15.0-1 python3-msal-extensions=0.3.0-1 python3-msrest=0.6.21-1 python3-msrestazure=0.6.2-1 python3-multidict=5.1.0-1 python3-nacl=1.4.0-1+b1 python3-nbformat=5.1.3-1 python3-networkx=2.5+ds-2 python3-numpy=1:1.19.5-1 python3-numpydoc=1.1.0-3 python3-oauthlib=3.1.1-1 python3-packaging=21.0-1 python3-paramiko=2.8.0-1 python3-pil=8.3.2-1 python3-pkg-resources=58.2.0-1 python3-plotly=4.14.3+dfsg-1 python3-portalocker=2.2.1-1 python3-psutil=5.8.0-2 python3-pulp=2.5.1+dfsg-2 python3-py2bit=0.3.0-6+b1 python3-pybigwig=0.3.17-1+b4 python3-pygments=2.7.1+dfsg-2.1 python3-pyparsing=2.4.7-1 python3-pyrsistent=0.15.5-1+b3 python3-pysam=0.17.0+ds-2 python3-ratelimiter=1.2.0.post0-1 python3-requests=2.25.1+dfsg-2 python3-requests-oauthlib=1.3.0+ds-0.1 python3-retrying=1.3.3-4 python3-rich=9.11.0-1 python3-roman=2.0.0-5 python3-s3transfer=0.5.0-1 python3-scipy=1.7.1-1 python3-setuptools=58.2.0-1 python3-simplejson=3.17.5-2 python3-six=1.16.0-2 python3-smart-open=5.2.1-1 python3-smmap=4.0.0-1 python3-snowballstemmer=2.1.0-2 python3-spectra=0.0.11-2 python3-sphinx=4.2.0-5 python3-stopit=1.1.2-1 python3-tabulate=0.8.7-0.1 python3-toposort=1.6-1 python3-traitlets=5.1.0-1 python3-typing-extensions=3.10.0.2-1 python3-tz=2021.3-1 python3-uamqp=1.4.2-2 python3-urllib3=1.26.5-1~exp1 python3-wrapt=1.12.1-4+b1 python3-xopen=1.2.1-1 python3-yaml=5.4.1-1 python3-yarl=1.6.3-2 python3-zipp=1.0.0-3 python3.9=3.9.7-4 python3.9-minimal=3.9.7-4 r-base-core=4.1.1-2 r-bioc-annotate=1.70.0+dfsg-1 r-bioc-annotationdbi=1.54.1-2 r-bioc-biobase=2.52.0-1 r-bioc-biocgenerics=0.38.0-1 r-bioc-biocio=1.2.0+dfsg-2 r-bioc-biocparallel=1.26.2-1 r-bioc-biostrings=2.60.2-1 r-bioc-delayedarray=0.18.0+dfsg-2 r-bioc-deseq2=1.32.0+dfsg-3 r-bioc-genefilter=1.74.1-1 r-bioc-geneplotter=1.70.0-1 r-bioc-genomeinfodb=1.28.4-1 r-bioc-genomeinfodbdata=1.2.6-1 r-bioc-genomicalignments=1.28.0-1 r-bioc-genomicranges=1.44.0+dfsg-1 r-bioc-iranges=2.26.0-1 r-bioc-keggrest=1.32.0+dfsg-1 r-bioc-matrixgenerics=1.4.3-1 r-bioc-rhtslib=1.24.0+dfsg-1 r-bioc-rsamtools=2.8.0-1 r-bioc-rtracklayer=1.52.1-1 r-bioc-s4vectors=0.30.2-1 r-bioc-summarizedexperiment=1.22.0+dfsg-1 r-bioc-tximport=1.20.0+dfsg-1 r-bioc-xvector=0.32.0-1 r-bioc-zlibbioc=1.38.0+dfsg-1 r-cran-abind=1.4-5-2 r-cran-askpass=1.1-2 r-cran-backports=1.2.1-1 r-cran-base64enc=0.1-3-3 r-cran-bh=1.74.0-2 r-cran-bit=4.0.4+dfsg-1 r-cran-bit64=4.0.5-1 r-cran-bitops=1.0-7-1 r-cran-blob=1.2.2-1 r-cran-boot=1.3-28-2 r-cran-broom=0.7.9+dfsg-1 r-cran-cachem=1.0.6-1 r-cran-car=3.0-11-2 r-cran-cardata=3.0.4-1 r-cran-cellranger=1.1.0-3 r-cran-cli=3.0.1-1 r-cran-clipr=0.7.1-1 r-cran-colorspace=2.0-2+dfsg-1 r-cran-colourpicker=1.1.1+dfsg-1 r-cran-commonmark=1.7-2 r-cran-conquer=1.0.2-1 r-cran-corrplot=0.90-1 r-cran-cowplot=1.1.1+dfsg-1 r-cran-cpp11=0.4.0-1 r-cran-crayon=1.4.1-1 r-cran-crosstalk=1.1.1+dfsg-2 r-cran-curl=4.3.2+dfsg-1 r-cran-data.table=1.14.2+dfsg-1 r-cran-dbi=1.1.1-1 r-cran-digest=0.6.28-1 r-cran-dplyr=1.0.7-2 r-cran-dt=0.17+dfsg-3 r-cran-ellipsis=0.3.2-2 r-cran-evaluate=0.14-2 r-cran-fansi=0.5.0-1 r-cran-farver=2.1.0-1 r-cran-fastmap=1.1.0-1 r-cran-forcats=0.5.1-1 r-cran-foreign=0.8.81-1 r-cran-formatr=1.11-1 r-cran-futile.logger=1.4.3-4 r-cran-futile.options=1.0.1-3 r-cran-generics=0.1.0-1 r-cran-ggplot2=3.3.5+dfsg-2 r-cran-ggpubr=0.4.0-1 r-cran-ggrepel=0.9.1-1 r-cran-ggsci=2.9-3 r-cran-ggsignif=0.6.3-1 r-cran-glue=1.4.2-1 r-cran-gprofiler2=0.2.1+dfsg-1 r-cran-gridextra=2.3-3 r-cran-gtable=0.3.0+dfsg-2 r-cran-haven=2.4.3-2 r-cran-highr=0.9+dfsg-1 r-cran-hms=1.1.1-1 r-cran-htmltools=0.5.2-1 r-cran-htmlwidgets=1.5.4+dfsg-1 r-cran-httpuv=1.6.3+dfsg-1 r-cran-httr=1.4.2-1 r-cran-isoband=0.2.5-1 r-cran-jsonlite=1.7.2+dfsg-1 r-cran-knitr=1.36+dfsg-1 r-cran-labeling=0.4.2-1 r-cran-lambda.r=1.2.4-2 r-cran-later=1.3.0+dfsg-1 r-cran-lattice=0.20-45-1 r-cran-lazyeval=0.2.2-1+b1 r-cran-lifecycle=1.0.1-1 r-cran-littler=0.3.14-1 r-cran-lme4=1.1-27.1-2 r-cran-locfit=1.5-9.4-2+b1 r-cran-magrittr=2.0.1-1 r-cran-maptools=1:1.1-2+dfsg-1 r-cran-mass=7.3-54-2 r-cran-matrix=1.3-4-2 r-cran-matrixmodels=0.5-0-1 r-cran-matrixstats=0.61.0-1 r-cran-memoise=2.0.0-1 r-cran-mgcv=1.8-38-1 r-cran-mime=0.12-1 r-cran-miniui=0.1.1.1-3 r-cran-minqa=1.2.4-1+b5 r-cran-munsell=0.5.0-2 r-cran-nlme=3.1.153-1 r-cran-nloptr=1.2.2.2-1 r-cran-nnet=7.3-16-2 r-cran-numderiv=2016.8-1.1-3 r-cran-openssl=1.4.5+dfsg-1 r-cran-openxlsx=4.2.4-2 r-cran-pbkrtest=0.5.1-1 r-cran-pheatmap=1.0.12-2 r-cran-pillar=1.6.4+dfsg-1 r-cran-pkgconfig=2.0.3-2 r-cran-pkgkitten=0.2.2-2 r-cran-plogr=0.2.0-3 r-cran-plotly=4.10.0+dfsg-1 r-cran-plyr=1.8.6-2 r-cran-png=0.1-7-4 r-cran-polynom=1.4-0-3 r-cran-prettyunits=1.1.1-2 r-cran-progress=1.2.2-2 r-cran-promises=1.2.0.1+dfsg-1 r-cran-purrr=0.3.4-1+b1 r-cran-quantreg=5.86-2 r-cran-r6=2.5.1-1 r-cran-rcolorbrewer=1.1-2-3 r-cran-rcpp=1.0.7-2 r-cran-rcpparmadillo=0.10.7.0.0-1 r-cran-rcppeigen=0.3.3.9.1-1 r-cran-rcurl=1.98-1.5-1 r-cran-readr=2.0.2-1 r-cran-readxl=1.3.1-2+b1 r-cran-rematch=1.0.1-3 r-cran-reshape2=1.4.4-2 r-cran-restfulr=0.0.13-2 r-cran-rio=0.5.27-2 r-cran-rjson=0.2.20-2 r-cran-rlang=0.4.12-2 r-cran-rmarkdown=2.6+dfsg-1 r-cran-rsqlite=2.2.8-1 r-cran-rstatix=0.7.0-1 r-cran-scales=1.1.1-1 r-cran-shiny=1.5.0+dfsg-2 r-cran-shinyjs=2.0.0-1 r-cran-snow=1:0.4.3-2 r-cran-sourcetools=0.1.7-3 r-cran-sp=1:1.4-5-1 r-cran-sparsem=1.81-1 r-cran-statmod=1.4.36-1 r-cran-stringi=1.7.5-1 r-cran-stringr=1.4.0-2 r-cran-survival=3.2-13-1 r-cran-sys=3.4-1 r-cran-tibble=3.1.5+dfsg-1 r-cran-tidyr=1.1.4-1 r-cran-tidyselect=1.1.1+dfsg-1 r-cran-tinytex=0.34-1 r-cran-tzdb=0.1.2-2 r-cran-utf8=1.2.2-1 r-cran-vctrs=0.3.8-1 r-cran-viridislite=0.4.0-2 r-cran-vroom=1.5.5-1+b1 r-cran-withr=2.4.2-1 r-cran-xfun=0.27-1 r-cran-xml=3.99-0.8-1 r-cran-xtable=1:1.8-4-2 r-cran-yaml=2.2.1-1+b1 r-cran-zip=2.2.0-2 readline-common=8.1-2 rpcsvc-proto=1.4.2-4 salmon=1.5.2+ds1-1 samtools=1.13-2 sed=4.8-1 sensible-utils=0.0.17 sgml-base=1.30 shared-mime-info=2.0-1 snakemake=6.9.1+dfsg1-4 sphinx-common=4.2.0-5 sphinx-rtd-theme-common=1.0.0+dfsg-1 sysvinit-utils=3.00-1 tar=1.34+dfsg-1 trim-galore=0.6.7-1 ttf-bitstream-vera=1.10-8.1 tzdata=2021d-1 ucf=3.0043 unzip=6.0-26 util-linux=2.37.2-4 x11-common=1:7.7+23 xdg-utils=1.1.3-4.1 xml-core=0.18+nmu1 xz-utils=5.2.5-2 zip=3.0-12 zlib1g=1:1.2.11.dfsg-2 zlib1g-dev=1:1.2.11.dfsg-2 --variant=apt --aptopt=Acquire::Check-Valid-Until "false" --aptopt=Acquire::http::Dl-Limit "1000"; --aptopt=Acquire::https::Dl-Limit "1000"; --aptopt=Acquire::Retries "5"; --aptopt=APT::Get::allow-downgrades "true"; --keyring=/usr/share/keyrings/ --essential-hook=chroot "$1" sh -c "apt-get --yes install fakeroot util-linux" --essential-hook=copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ --essential-hook=chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20211029T033902Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211029T033902Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211110T150056Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211023T084733Z/ unstable main' >> /etc/apt/sources.list && apt-get update" --customize-hook=chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash --customize-hook=chroot "$1" env sh -c "apt-get source --only-source -d pigx-rnaseq=0.0.19-2 && mkdir -p /build/pigx-rnaseq-E9voa5 && dpkg-source --no-check -x /*.dsc /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19 && chown -R builduser:builduser /build/pigx-rnaseq-E9voa5" --customize-hook=chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1635021287" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all" --customize-hook=sync-out /build/pigx-rnaseq-E9voa5 /tmp/pigx-rnaseq-0.0.19-2g6ktumch bookworm /dev/null deb http://snapshot.notset.fr/archive/debian/20211023T084733Z unstable main I: automatically chosen mode: root I: chroot architecture amd64 is equal to the host's architecture I: automatically chosen format: null I: using /tmp/mmdebstrap.p6CrBFxplq as tempdir I: running apt-get update... I: downloading packages with apt... I: extracting archives... I: installing essential packages... I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "apt-get --yes install fakeroot util-linux"' exec /tmp/mmdebstrap.p6CrBFxplq Reading package lists... Building dependency tree... util-linux is already the newest version (2.37.2-4). The following NEW packages will be installed: fakeroot libfakeroot 0 upgraded, 2 newly installed, 0 to remove and 0 not upgraded. Need to get 134 kB of archives. After this operation, 397 kB of additional disk space will be used. Get:1 http://snapshot.notset.fr/archive/debian/20211023T084733Z unstable/main amd64 libfakeroot amd64 1.26-1 [47.3 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211023T084733Z unstable/main amd64 fakeroot amd64 1.26-1 [87.1 kB] debconf: delaying package configuration, since apt-utils is not installed Fetched 134 kB in 0s (913 kB/s) Selecting previously unselected package libfakeroot:amd64. (Reading database ... (Reading database ... 5% (Reading database ... 10% (Reading database ... 15% (Reading database ... 20% (Reading database ... 25% (Reading database ... 30% (Reading database ... 35% (Reading database ... 40% (Reading database ... 45% (Reading database ... 50% (Reading database ... 55% (Reading database ... 60% (Reading database ... 65% (Reading database ... 70% (Reading database ... 75% (Reading database ... 80% (Reading database ... 85% (Reading database ... 90% (Reading database ... 95% (Reading database ... 100% (Reading database ... 4666 files and directories currently installed.) Preparing to unpack .../libfakeroot_1.26-1_amd64.deb ... Unpacking libfakeroot:amd64 (1.26-1) ... Selecting previously unselected package fakeroot. Preparing to unpack .../fakeroot_1.26-1_amd64.deb ... Unpacking fakeroot (1.26-1) ... Setting up libfakeroot:amd64 (1.26-1) ... Setting up fakeroot (1.26-1) ... update-alternatives: using /usr/bin/fakeroot-sysv to provide /usr/bin/fakeroot (fakeroot) in auto mode Processing triggers for libc-bin (2.32-4) ... I: running special hook: copy-in /usr/share/keyrings/debian-archive-bullseye-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-security-automatic.gpg /usr/share/keyrings/debian-archive-bullseye-stable.gpg /usr/share/keyrings/debian-archive-buster-automatic.gpg /usr/share/keyrings/debian-archive-buster-security-automatic.gpg /usr/share/keyrings/debian-archive-buster-stable.gpg /usr/share/keyrings/debian-archive-keyring.gpg /usr/share/keyrings/debian-archive-removed-keys.gpg /usr/share/keyrings/debian-archive-stretch-automatic.gpg /usr/share/keyrings/debian-archive-stretch-security-automatic.gpg /usr/share/keyrings/debian-archive-stretch-stable.gpg /usr/share/keyrings/debian-ports-archive-keyring-removed.gpg /usr/share/keyrings/debian-ports-archive-keyring.gpg /usr/share/keyrings/debian-keyring.gpg /etc/apt/trusted.gpg.d/ I: running --essential-hook in shell: sh -c 'chroot "$1" sh -c "rm /etc/apt/sources.list && echo 'deb http://snapshot.notset.fr/archive/debian/20211029T033902Z/ bookworm main deb-src http://snapshot.notset.fr/archive/debian/20211029T033902Z/ bookworm main deb http://snapshot.notset.fr/archive/debian/20211110T150056Z/ unstable main deb http://snapshot.notset.fr/archive/debian/20211023T084733Z/ unstable main' >> /etc/apt/sources.list && apt-get update"' exec /tmp/mmdebstrap.p6CrBFxplq Get:1 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm InRelease [128 kB] Get:2 http://snapshot.notset.fr/archive/debian/20211110T150056Z unstable InRelease [165 kB] Hit:3 http://snapshot.notset.fr/archive/debian/20211023T084733Z unstable InRelease Ign:4 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main amd64 Packages Ign:4 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main Sources Ign:5 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main amd64 Packages Get:4 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main Sources [11.7 MB] Get:5 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main amd64 Packages [11.2 MB] Ign:6 http://snapshot.notset.fr/archive/debian/20211110T150056Z unstable/main amd64 Packages Err:6 http://snapshot.notset.fr/archive/debian/20211110T150056Z unstable/main amd64 Packages 404 Not Found [IP: 10.13.0.253 80] Ign:6 http://snapshot.notset.fr/archive/debian/20211110T150056Z unstable/main amd64 Packages Get:6 http://snapshot.notset.fr/archive/debian/20211110T150056Z unstable/main amd64 Packages [12.0 MB] Fetched 35.1 MB in 29s (1212 kB/s) Reading package lists... I: installing remaining packages inside the chroot... I: running --customize-hook in shell: sh -c 'chroot "$1" useradd --no-create-home -d /nonexistent -p "" builduser -s /bin/bash' exec /tmp/mmdebstrap.p6CrBFxplq I: running --customize-hook in shell: sh -c 'chroot "$1" env sh -c "apt-get source --only-source -d pigx-rnaseq=0.0.19-2 && mkdir -p /build/pigx-rnaseq-E9voa5 && dpkg-source --no-check -x /*.dsc /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19 && chown -R builduser:builduser /build/pigx-rnaseq-E9voa5"' exec /tmp/mmdebstrap.p6CrBFxplq Reading package lists... NOTICE: 'pigx-rnaseq' packaging is maintained in the 'Git' version control system at: https://salsa.debian.org/med-team/pigx-rnaseq.git Please use: git clone https://salsa.debian.org/med-team/pigx-rnaseq.git to retrieve the latest (possibly unreleased) updates to the package. Need to get 4434 kB of source archives. Get:1 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main pigx-rnaseq 0.0.19-2 (dsc) [2847 B] Get:2 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main pigx-rnaseq 0.0.19-2 (tar) [4418 kB] Get:3 http://snapshot.notset.fr/archive/debian/20211029T033902Z bookworm/main pigx-rnaseq 0.0.19-2 (diff) [12.4 kB] Fetched 4434 kB in 4s (1247 kB/s) Download complete and in download only mode W: Download is performed unsandboxed as root as file 'pigx-rnaseq_0.0.19-2.dsc' couldn't be accessed by user '_apt'. - pkgAcquire::Run (13: Permission denied) dpkg-source: info: extracting pigx-rnaseq in /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19 dpkg-source: info: unpacking pigx-rnaseq_0.0.19.orig.tar.xz dpkg-source: info: unpacking pigx-rnaseq_0.0.19-2.debian.tar.xz I: running --customize-hook in shell: sh -c 'chroot "$1" env --unset=TMPDIR runuser builduser -c "cd /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19 && env DEB_BUILD_OPTIONS="parallel=4" LANG="C.UTF-8" LC_ALL="C.UTF-8" LC_COLLATE="C.UTF-8" SOURCE_DATE_EPOCH="1635021287" DEB_BUILD_OPTIONS=nocheck dpkg-buildpackage -uc -a amd64 --build=all"' exec /tmp/mmdebstrap.p6CrBFxplq dpkg-buildpackage: info: source package pigx-rnaseq dpkg-buildpackage: info: source version 0.0.19-2 dpkg-buildpackage: info: source distribution unstable dpkg-buildpackage: info: source changed by Nilesh Patra dpkg-source --before-build . debian/rules clean dh clean debian/rules override_dh_auto_clean make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_auto_clean install -d /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/.debhelper/generated/_source/home rm -rf pigx-common rm -f config.log test.sh rm -rf tests/output rm -f Makefile.in aclocal.m4 build-aux/install-sh build-aux/missing build-aux/test-driver rm -f scripts/jquery.min.js rm -f conftest.tar confdefs.h make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_clean rm -f debian/debhelper-build-stamp rm -rf debian/.debhelper/ rm -f -- debian/pigx-rnaseq.substvars debian/files rm -fr -- debian/pigx-rnaseq/ debian/tmp/ find . \( \( \ \( -path .\*/.git -o -path .\*/.svn -o -path .\*/.bzr -o -path .\*/.hg -o -path .\*/CVS -o -path .\*/.pc -o -path .\*/_darcs \) -prune -o -type f -a \ \( -name '#*#' -o -name '.*~' -o -name '*~' -o -name DEADJOE \ -o -name '*.orig' -o -name '*.rej' -o -name '*.bak' \ -o -name '.*.orig' -o -name .*.rej -o -name '.SUMS' \ -o -name TAGS -o \( -path '*/.deps/*' -a -name '*.P' \) \ \) -exec rm -f {} + \) -o \ \( -type d -a -name autom4te.cache -prune -exec rm -rf {} + \) \) debian/rules binary-indep dh binary-indep dh_update_autotools_config -i debian/rules execute_before_dh_autoreconf make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' mkdir -p /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/pigx-common cp -a debian/common /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/pigx-common make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_autoreconf -i find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.before grep -q ^XDT_ configure.ac autoreconf -f -i configure.ac:6: installing 'build-aux/install-sh' configure.ac:6: installing 'build-aux/missing' parallel-tests: installing 'build-aux/test-driver' find ! -ipath "./debian/*" -a ! \( -path '*/.git/*' -o -path '*/.hg/*' -o -path '*/.bzr/*' -o -path '*/.svn/*' -o -path '*/CVS/*' \) -a -type f -exec md5sum {} + -o -type l -printf "symlink %p " > debian/autoreconf.after debian/rules override_dh_auto_configure make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_auto_configure -- GUNZIP=/bin/gunzip SED=/bin/sed install -d /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/.debhelper/generated/_source/home ./configure --build=x86_64-linux-gnu --prefix=/usr --includedir=\${prefix}/include --mandir=\${prefix}/share/man --infodir=\${prefix}/share/info --sysconfdir=/etc --localstatedir=/var --disable-option-checking --disable-silent-rules --libdir=\${prefix}/lib/x86_64-linux-gnu --runstatedir=/run --disable-maintainer-mode --disable-dependency-tracking GUNZIP=/bin/gunzip SED=/bin/sed checking for a BSD-compatible install... /usr/bin/install -c checking whether build environment is sane... yes checking for a race-free mkdir -p... /bin/mkdir -p checking for gawk... no checking for mawk... mawk checking whether make sets $(MAKE)... yes checking whether make supports nested variables... yes checking how to create a pax tar archive... gnutar checking whether make supports nested variables... (cached) yes checking for a sed that does not truncate output... /bin/sed checking for a Python interpreter with version >= 3.5... python3 checking for python3... /usr/bin/python3 checking for python3 version... 3.9 checking for python3 platform... linux checking for GNU default python3 prefix... ${prefix} checking for GNU default python3 exec_prefix... ${exec_prefix} checking for python3 script directory (pythondir)... ${PYTHON_PREFIX}/lib/python3.9/site-packages checking for python3 extension module directory (pyexecdir)... ${PYTHON_EXEC_PREFIX}/lib/python3.9/site-packages checking python3 module: yaml... yes configure: Using /bin/gunzip as gunzip executable. configure: Using /bin/sed as sed executable. configure: Using /bin/bash as bash executable. checking for snakemake... /usr/bin/snakemake checking for pandoc... /usr/bin/pandoc checking for pandoc-citeproc... /usr/bin/pandoc-citeproc configure: Using /usr/bin/STAR as STAR executable. checking for hisat2... /usr/bin/hisat2 checking for hisat2-build... /usr/bin/hisat2-build checking for multiqc... /usr/bin/multiqc checking for fastp... /usr/bin/fastp configure: Using /usr/bin/salmon as salmon executable. checking for R... /usr/bin/R checking for Rscript... /usr/bin/Rscript checking for bamCoverage... /usr/bin/bamCoverage checking R package rmarkdown ... yes checking R package knitr ... yes checking R package ggplot2 ... yes checking R package ggrepel ... yes checking R package DESeq2 ... yes checking R package DT ... yes checking R package pheatmap ... yes checking R package corrplot ... yes checking R package reshape2 ... yes checking R package plotly ... yes checking R package scales ... yes checking R package crosstalk ... yes checking R package gprofiler2 ... yes checking R package ggpubr ... yes checking R package rtracklayer ... yes checking R package SummarizedExperiment ... yes checking R package tximport ... yes checking R package rjson ... yes checking for samtools... /usr/bin/samtools configure: Environment variables will be captured. checking that generated files are newer than configure... done configure: creating ./config.status config.status: creating META config.status: creating etc/settings.yaml config.status: creating scripts/deseqReport.Rmd config.status: creating Makefile config.status: creating qsub-template.sh config.status: creating test.sh config.status: creating tests/test_hisat2/test.sh config.status: creating tests/test_salmon/test_salmon_index.sh config.status: creating tests/test_salmon/test_salmon_quant.sh config.status: creating tests/test_salmon_counts/test.sh config.status: creating tests/test_hisat2_counts/test.sh config.status: creating tests/test_multiqc/test.sh config.status: creating tests/test_deseq_reports/test.sh config.status: creating tests/test_genome_coverage/test.sh config.status: creating pigx-rnaseq make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_auto_build -i make -j10 make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' make[1]: Nothing to be done for 'all'. make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' create-stamp debian/debhelper-build-stamp dh_prep -i rm -f -- debian/pigx-rnaseq.substvars rm -fr -- debian/.debhelper/generated/pigx-rnaseq/ debian/pigx-rnaseq/ debian/tmp/ rm -f debian/pigx-rnaseq.debhelper.log debian/rules override_dh_auto_install make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_auto_install install -d /build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq make -j10 install DESTDIR=/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq AM_UPDATE_INFO_DIR=no make[2]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' make[3]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' /bin/mkdir -p '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/libexec/pigx_rnaseq' /bin/mkdir -p '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/libexec/pigx_rnaseq/scripts' /bin/mkdir -p '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/bin' /bin/mkdir -p '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/share/pigx_rnaseq' /bin/mkdir -p '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/share/doc/pigx_rnaseq' /bin/bash: fork: retry: Resource temporarily unavailable /usr/bin/install -c snakefile.py qsub-template.sh '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/libexec/pigx_rnaseq' /bin/bash: fork: retry: Resource temporarily unavailable /bin/bash: fork: retry: Resource temporarily unavailable /usr/bin/install -c scripts/runDeseqReport.R scripts/translate_sample_sheet_for_report.R scripts/deseqReport.Rmd scripts/counts_matrix_from_SALMON.R scripts/validate_input.py scripts/norm_counts_deseq.R scripts/count_reads.R scripts/collate_read_counts.R '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/libexec/pigx_rnaseq/scripts' /usr/bin/install -c pigx-rnaseq '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/bin' /usr/bin/install -c -m 644 etc/sample_sheet.csv.example etc/settings.yaml etc/pretty.txt images/Logo_PiGx.png '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/share/pigx_rnaseq' /usr/bin/install -c -m 644 README.md '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19/debian/pigx-rnaseq/usr/share/doc/pigx_rnaseq' make[3]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' make[2]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_installdocs -i install -d debian/pigx-rnaseq/usr/share/doc/pigx-rnaseq install -d debian/.debhelper/generated/pigx-rnaseq cp --reflink=auto -a ./README.md debian/pigx-rnaseq/usr/share/doc/pigx-rnaseq cp --reflink=auto -a ./CONTRIBUTING debian/pigx-rnaseq/usr/share/doc/pigx-rnaseq chmod -R u\+rw,go=rX debian/pigx-rnaseq/usr/share/doc install -p -m0644 debian/copyright debian/pigx-rnaseq/usr/share/doc/pigx-rnaseq/copyright dh_installchangelogs -i install -p -m0644 debian/changelog debian/pigx-rnaseq/usr/share/doc/pigx-rnaseq/changelog.Debian dh_installman -i install -d debian/pigx-rnaseq/usr/share/man/man1/ install -p -m0644 ./debian/pigx-rnaseq.1 debian/pigx-rnaseq/usr/share/man/man1/pigx-rnaseq.1 man-recode --to-code UTF-8 --suffix .dh-new debian/pigx-rnaseq/usr/share/man/man1/pigx-rnaseq.1 mv debian/pigx-rnaseq/usr/share/man/man1/pigx-rnaseq.1.dh-new debian/pigx-rnaseq/usr/share/man/man1/pigx-rnaseq.1 chmod 0644 -- debian/pigx-rnaseq/usr/share/man/man1/pigx-rnaseq.1 dh_perl -i dh_link -i dh_strip_nondeterminism -i Using 1635021287 as canonical time Normalizing debian/pigx-rnaseq/usr/share/pigx_rnaseq/Logo_PiGx.png using File::StripNondeterminism::handlers::png dh_compress -i cd debian/pigx-rnaseq chmod a-x usr/share/doc/pigx-rnaseq/changelog.Debian usr/share/man/man1/pigx-rnaseq.1 gzip -9nf usr/share/doc/pigx-rnaseq/changelog.Debian usr/share/man/man1/pigx-rnaseq.1 cd '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' rm -f debian/pigx-rnaseq.debhelper.log debian/rules override_dh_fixperms make[1]: Entering directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_fixperms find debian/pigx-rnaseq ! -type l -a -true -a -true -print0 2>/dev/null | xargs -0r chmod go=rX,u+rw,a-s find debian/pigx-rnaseq/usr/share/doc -type f -a -true -a ! -regex 'debian/pigx-rnaseq/usr/share/doc/[^/]*/examples/.*' -print0 2>/dev/null | xargs -0r chmod 0644 find debian/pigx-rnaseq/usr/share/doc -type d -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0755 find debian/pigx-rnaseq/usr/share/man -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/pigx-rnaseq -type f \( -name '*.so.*' -o -name '*.so' -o -name '*.la' -o -name '*.a' -o -name '*.js' -o -name '*.css' -o -name '*.scss' -o -name '*.sass' -o -name '*.jpeg' -o -name '*.jpg' -o -name '*.png' -o -name '*.gif' -o -name '*.cmxs' -o -name '*.node' \) -a -true -a -true -print0 2>/dev/null | xargs -0r chmod 0644 find debian/pigx-rnaseq/usr/bin debian/pigx-rnaseq/usr/libexec -type f -a -true -a -true -print0 2>/dev/null | xargs -0r chmod a+x find debian/pigx-rnaseq/usr/libexec/pigx_rnaseq -name "*.R" | xargs -r chmod -x find debian/pigx-rnaseq/usr/libexec/pigx_rnaseq -name "*.Rmd" | xargs -r chmod -x find debian/pigx-rnaseq/usr/libexec/pigx_rnaseq -name "*.py" | xargs -r chmod -x make[1]: Leaving directory '/build/pigx-rnaseq-E9voa5/pigx-rnaseq-0.0.19' dh_missing -i dh_installdeb -i install -d debian/pigx-rnaseq/DEBIAN dh_gencontrol -i echo misc:Depends= >> debian/pigx-rnaseq.substvars echo misc:Pre-Depends= >> debian/pigx-rnaseq.substvars dpkg-gencontrol -ppigx-rnaseq -ldebian/changelog -Tdebian/pigx-rnaseq.substvars -Pdebian/pigx-rnaseq chmod 0644 -- debian/pigx-rnaseq/DEBIAN/control dh_md5sums -i cd debian/pigx-rnaseq >/dev/null && xargs -r0 md5sum | perl -pe 'if (s@^\\@@) { s/\\\\/\\/g; }' > DEBIAN/md5sums chmod 0644 -- debian/pigx-rnaseq/DEBIAN/md5sums dh_builddeb -i dpkg-deb --root-owner-group --build debian/pigx-rnaseq .. dpkg-deb: building package 'pigx-rnaseq' in '../pigx-rnaseq_0.0.19-2_all.deb'. dpkg-genbuildinfo --build=all dpkg-genchanges --build=all >../pigx-rnaseq_0.0.19-2_all.changes dpkg-genchanges: info: binary-only arch-indep upload (source code and arch-specific packages not included) dpkg-source --after-build . dpkg-buildpackage: info: binary-only upload (no source included) I: running special hook: sync-out /build/pigx-rnaseq-E9voa5 /tmp/pigx-rnaseq-0.0.19-2g6ktumch I: cleaning package lists and apt cache... W: deleting files in /tmp: hsperfdata_root I: removing tempdir /tmp/mmdebstrap.p6CrBFxplq... I: success in 1736.7162 seconds md5: pigx-rnaseq_0.0.19-2_all.deb: OK sha1: pigx-rnaseq_0.0.19-2_all.deb: OK sha256: pigx-rnaseq_0.0.19-2_all.deb: OK Checksums: OK