I: pbuilder: network access will be disabled during build I: Current time: Fri Nov 15 02:15:05 -12 2024 I: pbuilder-time-stamp: 1731680105 I: Building the build Environment I: extracting base tarball [/var/cache/pbuilder/unstable-reproducible-base.tgz] I: copying local configuration W: --override-config is not set; not updating apt.conf Read the manpage for details. I: mounting /proc filesystem I: mounting /sys filesystem I: creating /{dev,run}/shm I: mounting /dev/pts filesystem I: redirecting /dev/ptmx to /dev/pts/ptmx I: policy-rc.d already exists I: using eatmydata during job I: Copying source file I: copying [pigx-rnaseq_0.1.1-1.dsc] I: copying [./pigx-rnaseq_0.1.1.orig.tar.xz] I: copying [./pigx-rnaseq_0.1.1-1.debian.tar.xz] I: Extracting source gpgv: Signature made Sat Sep 7 11:58:29 2024 gpgv: using RSA key 724D609337113C710550D7473C26763F6C67E6E2 gpgv: Can't check signature: No public key dpkg-source: warning: cannot verify inline signature for ./pigx-rnaseq_0.1.1-1.dsc: no acceptable signature found dpkg-source: info: extracting pigx-rnaseq in pigx-rnaseq-0.1.1 dpkg-source: info: unpacking pigx-rnaseq_0.1.1.orig.tar.xz dpkg-source: info: unpacking pigx-rnaseq_0.1.1-1.debian.tar.xz I: Not using root during the build. I: Installing the build-deps I: user script /srv/workspace/pbuilder/30328/tmp/hooks/D02_print_environment starting I: set BUILDDIR='/build/reproducible-path' BUILDUSERGECOS='first user,first room,first work-phone,first home-phone,first other' BUILDUSERNAME='pbuilder1' BUILD_ARCH='i386' DEBIAN_FRONTEND='noninteractive' DEB_BUILD_OPTIONS='buildinfo=+all reproducible=+all parallel=6 ' DISTRIBUTION='unstable' HOME='/root' HOST_ARCH='i386' IFS=' ' INVOCATION_ID='6917559e1b81427ea1170fcc58863298' LANG='C' LANGUAGE='en_US:en' LC_ALL='C' LD_LIBRARY_PATH='/usr/lib/libeatmydata' LD_PRELOAD='libeatmydata.so' MAIL='/var/mail/root' OPTIND='1' PATH='/usr/sbin:/usr/bin:/sbin:/bin:/usr/games' PBCURRENTCOMMANDLINEOPERATION='build' PBUILDER_OPERATION='build' PBUILDER_PKGDATADIR='/usr/share/pbuilder' PBUILDER_PKGLIBDIR='/usr/lib/pbuilder' PBUILDER_SYSCONFDIR='/etc' PPID='30328' 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.prSBmrBk/pbuilderrc_xz40 --distribution unstable --hookdir /etc/pbuilder/first-build-hooks --debbuildopts -b --basetgz /var/cache/pbuilder/unstable-reproducible-base.tgz --buildresult /srv/reproducible-results/rbuild-debian/r-b-build.prSBmrBk/b1 --logfile b1/build.log pigx-rnaseq_0.1.1-1.dsc' SUDO_GID='111' SUDO_UID='104' SUDO_USER='jenkins' TERM='unknown' TZ='/usr/share/zoneinfo/Etc/GMT+12' USER='root' _='/usr/bin/systemd-run' I: uname -a Linux infom07-i386 6.1.0-27-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.115-1 (2024-11-01) x86_64 GNU/Linux I: ls -l /bin lrwxrwxrwx 1 root root 7 Aug 4 21:30 /bin -> usr/bin I: user script /srv/workspace/pbuilder/30328/tmp/hooks/D02_print_environment finished -> Attempting to satisfy build-dependencies -> Creating pbuilder-satisfydepends-dummy package Package: pbuilder-satisfydepends-dummy Version: 0.invalid.0 Architecture: i386 Maintainer: Debian Pbuilder Team 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), autoconf-archive, fastp, fastqc, hisat2, libjs-jquery-datatables, libjs-jquery-tablesorter, megadepth, multiqc, python3-all, python3-deeptools, python3-htseq, r-bioc-deseq2, r-bioc-rtracklayer, r-bioc-summarizedexperiment, r-bioc-tximport, r-cran-corrplot, r-cran-crosstalk, r-cran-data.table, r-cran-dt, r-cran-ggplot2, r-cran-ggrepel, r-cran-gprofiler2, r-cran-ggpubr, r-cran-locfit, r-cran-pheatmap, r-cran-plotly, r-cran-reshape2, r-cran-rjson, r-cran-rlang, r-cran-rmarkdown, r-cran-scales, salmon, samtools, snakemake, trim-galore dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'. Selecting previously unselected package pbuilder-satisfydepends-dummy. (Reading database ... 19953 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 autoconf-archive; however: Package autoconf-archive is not installed. pbuilder-satisfydepends-dummy depends on fastp; however: Package fastp is not installed. pbuilder-satisfydepends-dummy depends on fastqc; however: Package fastqc is not installed. pbuilder-satisfydepends-dummy depends on hisat2; however: Package hisat2 is not installed. pbuilder-satisfydepends-dummy depends on libjs-jquery-datatables; however: Package libjs-jquery-datatables is not installed. pbuilder-satisfydepends-dummy depends on libjs-jquery-tablesorter; however: Package libjs-jquery-tablesorter is not installed. pbuilder-satisfydepends-dummy depends on megadepth; however: Package megadepth is not installed. pbuilder-satisfydepends-dummy depends on multiqc; however: Package multiqc is not installed. pbuilder-satisfydepends-dummy depends on python3-all; however: Package python3-all is not installed. pbuilder-satisfydepends-dummy depends on python3-deeptools; however: Package python3-deeptools is not installed. pbuilder-satisfydepends-dummy depends on python3-htseq; however: Package python3-htseq is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-deseq2; however: Package r-bioc-deseq2 is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-rtracklayer; however: Package r-bioc-rtracklayer is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-summarizedexperiment; however: Package r-bioc-summarizedexperiment is not installed. pbuilder-satisfydepends-dummy depends on r-bioc-tximport; however: Package r-bioc-tximport is not installed. pbuilder-satisfydepends-dummy depends on r-cran-corrplot; however: Package r-cran-corrplot is not installed. pbuilder-satisfydepends-dummy depends on r-cran-crosstalk; however: Package r-cran-crosstalk is not installed. pbuilder-satisfydepends-dummy depends on r-cran-data.table; however: Package r-cran-data.table is not installed. pbuilder-satisfydepends-dummy depends on r-cran-dt; however: Package r-cran-dt is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ggplot2; however: Package r-cran-ggplot2 is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ggrepel; however: Package r-cran-ggrepel is not installed. pbuilder-satisfydepends-dummy depends on r-cran-gprofiler2; however: Package r-cran-gprofiler2 is not installed. pbuilder-satisfydepends-dummy depends on r-cran-ggpubr; however: Package r-cran-ggpubr is not installed. pbuilder-satisfydepends-dummy depends on r-cran-locfit; however: Package r-cran-locfit is not installed. pbuilder-satisfydepends-dummy depends on r-cran-pheatmap; however: Package r-cran-pheatmap is not installed. pbuilder-satisfydepends-dummy depends on r-cran-plotly; however: Package r-cran-plotly is not installed. pbuilder-satisfydepends-dummy depends on r-cran-reshape2; however: Package r-cran-reshape2 is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rjson; however: Package r-cran-rjson is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rlang; however: Package r-cran-rlang is not installed. pbuilder-satisfydepends-dummy depends on r-cran-rmarkdown; however: Package r-cran-rmarkdown is not installed. pbuilder-satisfydepends-dummy depends on r-cran-scales; however: Package r-cran-scales is not installed. pbuilder-satisfydepends-dummy depends on salmon; however: Package salmon is not installed. pbuilder-satisfydepends-dummy depends on samtools; however: Package samtools is not installed. pbuilder-satisfydepends-dummy depends on snakemake; however: Package snakemake is not installed. pbuilder-satisfydepends-dummy depends on trim-galore; however: Package trim-galore 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} autoconf-archive{a} automake{a} autopoint{a} autotools-dev{a} blt{a} bsdextrautils{a} ca-certificates{a} coinor-cbc{a} coinor-libcbc3.1{a} coinor-libcgl1{a} coinor-libclp1{a} coinor-libcoinutils3v5{a} coinor-libosi1v5{a} cutadapt{a} debhelper{a} dh-autoreconf{a} dh-strip-nondeterminism{a} docutils-common{a} dwz{a} file{a} fontconfig{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} fonts-font-awesome{a} fonts-glyphicons-halflings{a} fonts-lyx{a} fonts-mathjax{a} gettext{a} gettext-base{a} git{a} git-man{a} groff-base{a} hisat2{a} intltool-debian{a} javascript-common{a} libarchive-zip-perl{a} libbigwig0t64{a} libblas3{a} libbrotli1{a} libcairo2{a} libcom-err2{a} libcurl3t64-gnutls{a} libcurl4t64{a} libdatrie1{a} libdebhelper-perl{a} libdeflate0{a} libelf1t64{a} liberror-perl{a} libexpat1{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgfortran5{a} libglib2.0-0t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libhts3t64{a} libhtscodecs2{a} libice6{a} libicu72{a} libimagequant0{a} libjbig0{a} libjpeg62-turbo{a} libjs-bootstrap{a} libjs-bootstrap4{a} libjs-d3{a} libjs-es5-shim{a} libjs-highlight.js{a} libjs-jquery{a} libjs-jquery-datatables{a} libjs-jquery-datatables-extensions{a} libjs-jquery-metadata{a} libjs-jquery-selectize.js{a} libjs-jquery-tablesorter{a} libjs-jquery-ui{a} libjs-json{a} libjs-mathjax{a} libjs-microplugin.js{a} libjs-modernizr{a} libjs-popper.js{a} libjs-prettify{a} libjs-sifter.js{a} libjs-sphinxdoc{a} libjs-twitter-bootstrap-datepicker{a} libjs-underscore{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} liblapack3{a} liblbfgsb0{a} liblcms2-2{a} libldap-2.5-0{a} liblerc4{a} liblua5.4-0{a} libmagic-mgc{a} libmagic1t64{a} libncurses6{a} libnghttp2-14{a} libnghttp3-9{a} libngtcp2-16{a} libngtcp2-crypto-gnutls8{a} libnlopt0{a} libnsl2{a} libnuma1{a} libopenjp2-7{a} libpango-1.0-0{a} libpangocairo-1.0-0{a} libpangoft2-1.0-0{a} libpaper-utils{a} libpaper1{a} libpipeline1{a} libpixman-1-0{a} libpng16-16t64{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.12-minimal{a} libpython3.12-stdlib{a} libpython3.12t64{a} libpython3.13{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libqhull-r8.0{a} libraqm0{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsharpyuv0{a} libsm6{a} libssh2-1t64{a} libtcl8.6{a} libthai-data{a} libthai0{a} libtiff6{a} libtirpc-common{a} libtirpc3t64{a} libtk8.6{a} libtool{a} libuchardet0{a} libuv1t64{a} libwebp7{a} libwebpdemux2{a} libwebpmux3{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} libxslt1.1{a} libxss1{a} libxt6t64{a} libyaml-0-2{a} littler{a} m4{a} man-db{a} media-types{a} megadepth{a} multiqc{a} netbase{a} node-bootstrap-sass{a} node-html5shiv{a} node-normalize.css{a} openssl{a} pandoc{a} pandoc-data{a} pigz{a} po-debconf{a} python-babel-localedata{a} python-matplotlib-data{a} python3{a} python3-alabaster{a} python3-all{a} python3-appdirs{a} python3-attr{a} python3-autocommand{a} python3-babel{a} python3-brotli{a} python3-certifi{a} python3-chardet{a} python3-charset-normalizer{a} python3-click{a} python3-colorama{a} python3-coloredlogs{a} python3-colormath{a} python3-configargparse{a} python3-connection-pool{a} python3-contourpy{a} python3-cutadapt{a} python3-cycler{a} python3-dateutil{a} python3-datrie{a} python3-decorator{a} python3-deeptools{a} python3-deeptoolsintervals{a} python3-defusedxml{a} python3-dnaio{a} python3-docutils{a} python3-dpath{a} python3-fastjsonschema{a} python3-fonttools{a} python3-fs{a} python3-git{a} python3-gitdb{a} python3-htseq{a} python3-humanfriendly{a} python3-humanize{a} python3-idna{a} python3-imagesize{a} python3-importlib-metadata{a} python3-inflect{a} python3-jaraco.context{a} python3-jaraco.functools{a} python3-jinja2{a} python3-jsonschema{a} python3-jsonschema-specifications{a} python3-jupyter-core{a} python3-kiwisolver{a} python3-lxml{a} python3-lz4{a} python3-lzstring{a} python3-markdown{a} python3-markdown-it{a} python3-markupsafe{a} python3-matplotlib{a} python3-mdurl{a} python3-minimal{a} python3-more-itertools{a} python3-mpmath{a} python3-nbformat{a} python3-networkx{a} python3-numpy{a} python3-numpydoc{a} python3-packaging{a} python3-pil{a} python3-pil.imagetk{a} python3-pkg-resources{a} python3-plac{a} python3-platformdirs{a} python3-plotly{a} python3-psutil{a} python3-pulp{a} python3-py{a} python3-py2bit{a} python3-pyaml-env{a} python3-pybigwig{a} python3-pygments{a} python3-pyparsing{a} python3-pysam{a} python3-ratelimiter{a} python3-referencing{a} python3-requests{a} python3-retry{a} python3-rich{a} python3-rich-click{a} python3-roman{a} python3-rpds-py{a} python3-scipy{a} python3-six{a} python3-smart-open{a} python3-smmap{a} python3-snowballstemmer{a} python3-spectra{a} python3-sphinx{a} python3-stopit{a} python3-sympy{a} python3-tabulate{a} python3-tenacity{a} python3-throttler{a} python3-tk{a} python3-toposort{a} python3-traitlets{a} python3-typeguard{a} python3-typing-extensions{a} python3-tz{a} python3-ufolib2{a} python3-unicodedata2{a} python3-urllib3{a} python3-wrapt{a} python3-xopen{a} python3-yaml{a} python3-yte{a} python3-zipp{a} python3.12{a} python3.12-minimal{a} python3.12-tk{a} python3.13{a} python3.13-minimal{a} python3.13-tk{a} r-base-core{a} r-bioc-biocgenerics{a} r-bioc-tximport{a} r-cran-abind{a} r-cran-askpass{a} r-cran-backports{a} r-cran-base64enc{a} r-cran-bit{a} r-cran-bit64{a} r-cran-bitops{a} r-cran-boot{a} r-cran-broom{a} r-cran-bslib{a} r-cran-cachem{a} r-cran-car{a} r-cran-cardata{a} r-cran-caret{a} r-cran-cellranger{a} r-cran-class{a} r-cran-cli{a} r-cran-clipr{a} r-cran-clock{a} r-cran-codetools{a} r-cran-colorspace{a} r-cran-colourpicker{a} r-cran-commonmark{a} r-cran-conquer{a} r-cran-corrplot{a} r-cran-cowplot{a} r-cran-cpp11{a} r-cran-crayon{a} r-cran-crosstalk{a} r-cran-curl{a} r-cran-data.table{a} r-cran-deriv{a} r-cran-diagram{a} r-cran-digest{a} r-cran-doby{a} r-cran-dplyr{a} r-cran-dt{a} r-cran-e1071{a} r-cran-ellipsis{a} r-cran-evaluate{a} r-cran-fansi{a} r-cran-farver{a} r-cran-fastmap{a} r-cran-fontawesome{a} r-cran-forcats{a} r-cran-foreach{a} r-cran-foreign{a} r-cran-formula{a} r-cran-fs{a} r-cran-future{a} r-cran-future.apply{a} r-cran-generics{a} r-cran-ggplot2{a} r-cran-ggpubr{a} r-cran-ggrepel{a} r-cran-ggsci{a} r-cran-ggsignif{a} r-cran-globals{a} r-cran-glue{a} r-cran-gower{a} r-cran-gprofiler2{a} r-cran-gridextra{a} r-cran-gtable{a} r-cran-hardhat{a} r-cran-haven{a} r-cran-highr{a} r-cran-hms{a} r-cran-htmltools{a} r-cran-htmlwidgets{a} r-cran-httpuv{a} r-cran-httr{a} r-cran-ipred{a} r-cran-isoband{a} r-cran-iterators{a} r-cran-jquerylib{a} r-cran-jsonlite{a} r-cran-kernsmooth{a} r-cran-knitr{a} r-cran-labeling{a} r-cran-later{a} r-cran-lattice{a} r-cran-lava{a} r-cran-lazyeval{a} r-cran-lifecycle{a} r-cran-listenv{a} r-cran-littler{a} r-cran-lme4{a} r-cran-locfit{a} r-cran-lubridate{a} r-cran-magrittr{a} r-cran-mass{a} r-cran-matrix{a} r-cran-matrixmodels{a} r-cran-matrixstats{a} r-cran-memoise{a} r-cran-mgcv{a} r-cran-microbenchmark{a} r-cran-mime{a} r-cran-miniui{a} r-cran-minqa{a} r-cran-modelmetrics{a} r-cran-modelr{a} r-cran-munsell{a} r-cran-nlme{a} r-cran-nloptr{a} r-cran-nnet{a} r-cran-numderiv{a} r-cran-openssl{a} r-cran-openxlsx{a} r-cran-parallelly{a} r-cran-pbkrtest{a} r-cran-pheatmap{a} r-cran-pillar{a} r-cran-pkgconfig{a} r-cran-pkgkitten{a} r-cran-plotly{a} r-cran-plyr{a} r-cran-polynom{a} r-cran-prettyunits{a} r-cran-proc{a} r-cran-prodlim{a} r-cran-progress{a} r-cran-progressr{a} r-cran-promises{a} r-cran-proxy{a} r-cran-purrr{a} r-cran-quantreg{a} 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trim-galore{a} tzdata{a} ucf{a} unicode-data{a} unzip{a} x11-common{a} xdg-utils{a} xml-core{a} zip{a} The following packages are RECOMMENDED but will NOT be installed: bcftools chromium curl cwltool dillo edbrowse elinks epiphany-browser falkon firefox firefox-esr graphicsmagick-imagemagick-compat imagemagick imagemagick-6.q16 imagemagick-7.q16 isympy-common konqueror krb5-locales less libarchive-cpio-perl libfile-mimeinfo-perl libglib2.0-data libgpm2 libjs-filesaver libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libnet-dbus-perl libsasl2-modules libx11-protocol-perl links links2 luakit lynx morph-browser netrik netsurf-fb netsurf-gtk node-clipboard node-highlight.js node-jquery openssh-client privacybrowser publicsuffix python3-azure-storage python3-biopython python3-boto3 python3-botocore python3-bs4 python3-cssselect python3-dropbox python3-flask python3-ftputil python3-gdal python3-hisat2 python3-html5lib python3-irodsclient python3-json-pointer 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Need to get 397 MB of archives. After unpacking 1485 MB will be used. The following packages have unmet dependencies: pbuilder-satisfydepends-dummy : Depends: fastp which is a virtual package and is not provided by any available package Depends: fastqc but it is not installable Depends: r-bioc-deseq2 which is a virtual package and is not provided by any available package Depends: r-bioc-rtracklayer which is a virtual package and is not provided by any available package Depends: r-bioc-summarizedexperiment but it is not installable Depends: salmon which is a virtual package and is not provided by any available package Unable to resolve dependencies! Giving up... 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r-cran-tidyverse r-cran-tikzdevice r-cran-tseries r-cran-unitizer r-cran-usethis r-cran-vcd r-cran-vdiffr r-cran-venndiagram r-cran-viridis r-cran-waldo r-cran-webshot r-cran-webutils r-cran-whoami r-cran-xml r-cran-xml2 r-cran-xts r-cran-zeallot r-cran-zoo r-doc-html r-recommended shared-mime-info sugar-browse-activity surf texlive-xetex vimb w3m wget x11-utils x11-xserver-utils xdg-user-dirs xemacs21-mule xemacs21-mule-canna-wnn xemacs21-nomule 0 packages upgraded, 497 newly installed, 0 to remove and 0 not upgraded. Need to get 397 MB of archives. After unpacking 1485 MB will be used. Abort. E: pbuilder-satisfydepends failed. I: unmounting dev/ptmx filesystem I: unmounting dev/pts filesystem I: unmounting dev/shm filesystem I: unmounting proc filesystem I: unmounting sys filesystem I: cleaning the build env I: removing directory /srv/workspace/pbuilder/30328 and its subdirectories