I: pbuilder: network access will be disabled during build
I: Current time: Fri Mar 7 08:31:27 -12 2025
I: pbuilder-time-stamp: 1741379487
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 [gbrowse_2.56+dfsg-12.dsc]
I: copying [./gbrowse_2.56+dfsg.orig.tar.gz]
I: copying [./gbrowse_2.56+dfsg-12.debian.tar.xz]
I: Extracting source
dpkg-source: warning: cannot verify inline signature for ./gbrowse_2.56+dfsg-12.dsc: unsupported subcommand
dpkg-source: info: extracting gbrowse in gbrowse-2.56+dfsg
dpkg-source: info: unpacking gbrowse_2.56+dfsg.orig.tar.gz
dpkg-source: info: unpacking gbrowse_2.56+dfsg-12.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying debian-packaging-patch
dpkg-source: info: applying gbrowse-slave-fix_defaults_path
dpkg-source: info: applying manpages.patch
dpkg-source: info: applying fix_pop_url
dpkg-source: info: applying skip_check_installed_test.patch
dpkg-source: info: applying source_init_functions
dpkg-source: info: applying init_script_dependency.patch
dpkg-source: info: applying fix_runlevel.patch
dpkg-source: info: applying spelling.patch
dpkg-source: info: applying fix_whatis_entry.patch
dpkg-source: info: applying remove_copy_of_LoadHelper.pm.patch
dpkg-source: info: applying fix_gd2_deprecation
dpkg-source: info: applying 0001-Build.PL-Seed-random-number-generator-with-SOURCE_DA.patch
I: Not using root during the build.
I: Installing the build-deps
I: user script /srv/workspace/pbuilder/64729/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=11 '
DISTRIBUTION='unstable'
HOME='/root'
HOST_ARCH='i386'
IFS='
'
INVOCATION_ID='c6724a5b96304830877b5eebcd539dad'
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='64729'
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.jL1FcAnI/pbuilderrc_u7Wk --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.jL1FcAnI/b1 --logfile b1/build.log gbrowse_2.56+dfsg-12.dsc'
SUDO_GID='112'
SUDO_UID='107'
SUDO_USER='jenkins'
TERM='unknown'
TZ='/usr/share/zoneinfo/Etc/GMT+12'
USER='root'
_='/usr/bin/systemd-run'
http_proxy='http://46.16.76.132:3128'
I: uname -a
Linux ionos12-i386 6.1.0-31-amd64 #1 SMP PREEMPT_DYNAMIC Debian 6.1.128-1 (2025-02-07) x86_64 GNU/Linux
I: ls -l /bin
lrwxrwxrwx 1 root root 7 Mar 4 11:20 /bin -> usr/bin
I: user script /srv/workspace/pbuilder/64729/tmp/hooks/D02_print_environment finished
-> Attempting to satisfy build-dependencies
-> Creating pbuilder-satisfydepends-dummy package
Package: pbuilder-satisfydepends-dummy
Version: 0.invalid.0
Architecture: i386
Maintainer: Debian Pbuilder Team <pbuilder-maint@lists.alioth.debian.org>
Description: Dummy package to satisfy dependencies with aptitude - created by pbuilder
This package was created automatically by pbuilder to satisfy the
build-dependencies of the package being currently built.
Depends: bioperl, debhelper-compat (= 13), dh-apache2, dh-exec, apache2-dev, libbio-graphics-perl, libbio-coordinate-perl, libbio-db-seqfeature-perl, libcapture-tiny-perl, libcgi-session-perl, libgd-gd2-perl | libgd-gd2-noxpm-perl, libio-string-perl, libjson-perl, libstatistics-descriptive-perl, libwww-perl, libhttp-daemon-perl, perl, sqlite3, libdbd-sqlite3-perl, libterm-readkey-perl, libjs-prototype, libjs-scriptaculous, libvm-ec2-perl, libmodule-build-perl, libcgi-pm-perl, rename
dpkg-deb: building package 'pbuilder-satisfydepends-dummy' in '/tmp/satisfydepends-aptitude/pbuilder-satisfydepends-dummy.deb'.
Selecting previously unselected package pbuilder-satisfydepends-dummy.
(Reading database ... 19769 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 bioperl; however:
Package bioperl is not installed.
pbuilder-satisfydepends-dummy depends on debhelper-compat (= 13); however:
Package debhelper-compat is not installed.
pbuilder-satisfydepends-dummy depends on dh-apache2; however:
Package dh-apache2 is not installed.
pbuilder-satisfydepends-dummy depends on dh-exec; however:
Package dh-exec is not installed.
pbuilder-satisfydepends-dummy depends on apache2-dev; however:
Package apache2-dev is not installed.
pbuilder-satisfydepends-dummy depends on libbio-graphics-perl; however:
Package libbio-graphics-perl is not installed.
pbuilder-satisfydepends-dummy depends on libbio-coordinate-perl; however:
Package libbio-coordinate-perl is not installed.
pbuilder-satisfydepends-dummy depends on libbio-db-seqfeature-perl; however:
Package libbio-db-seqfeature-perl is not installed.
pbuilder-satisfydepends-dummy depends on libcapture-tiny-perl; however:
Package libcapture-tiny-perl is not installed.
pbuilder-satisfydepends-dummy depends on libcgi-session-perl; however:
Package libcgi-session-perl is not installed.
pbuilder-satisfydepends-dummy depends on libgd-gd2-perl | libgd-gd2-noxpm-perl; however:
Package libgd-gd2-perl is not installed.
Package libgd-gd2-noxpm-perl is not installed.
pbuilder-satisfydepends-dummy depends on libio-string-perl; however:
Package libio-string-perl is not installed.
pbuilder-satisfydepends-dummy depends on libjson-perl; however:
Package libjson-perl is not installed.
pbuilder-satisfydepends-dummy depends on libstatistics-descriptive-perl; however:
Package libstatistics-descriptive-perl is not installed.
pbuilder-satisfydepends-dummy depends on libwww-perl; however:
Package libwww-perl is not installed.
pbuilder-satisfydepends-dummy depends on libhttp-daemon-perl; however:
Package libhttp-daemon-perl is not installed.
pbuilder-satisfydepends-dummy depends on sqlite3; however:
Package sqlite3 is not installed.
pbuilder-satisfydepends-dummy depends on libdbd-sqlite3-perl; however:
Package libdbd-sqlite3-perl is not installed.
pbuilder-satisfydepends-dummy depends on libterm-readkey-perl; however:
Package libterm-readkey-perl is not installed.
pbuilder-satisfydepends-dummy depends on libjs-prototype; however:
Package libjs-prototype is not installed.
pbuilder-satisfydepends-dummy depends on libjs-scriptaculous; however:
Package libjs-scriptaculous is not installed.
pbuilder-satisfydepends-dummy depends on libvm-ec2-perl; however:
Package libvm-ec2-perl is not installed.
pbuilder-satisfydepends-dummy depends on libmodule-build-perl; however:
Package libmodule-build-perl is not installed.
pbuilder-satisfydepends-dummy depends on libcgi-pm-perl; however:
Package libcgi-pm-perl is not installed.
pbuilder-satisfydepends-dummy depends on rename; however:
Package rename 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:
apache2-bin{a} apache2-dev{a} autoconf{a} automake{a} autopoint{a} autotools-dev{a} bioperl{a} bsdextrautils{a} ca-certificates{a} debhelper{a} dh-autoreconf{a} dh-exec{a} dh-strip-nondeterminism{a} dwz{a} file{a} fontconfig-config{a} fonts-dejavu-core{a} fonts-dejavu-mono{a} gettext{a} gettext-base{a} groff-base{a} intltool-debian{a} libabsl20230802{a} libalgorithm-diff-perl{a} libanyevent-cachedns-perl{a} libanyevent-http-perl{a} libanyevent-perl{a} libaom3{a} libapache-dbi-perl{a} libapache2-mod-perl2{a} libapr1-dev{a} libapr1t64{a} libaprutil1-dbd-sqlite3{a} libaprutil1-dev{a} libaprutil1-ldap{a} libaprutil1t64{a} libarchive-zip-perl{a} libavif16{a} libbio-coordinate-perl{a} libbio-db-biofetch-perl{a} libbio-db-gff-perl{a} libbio-db-seqfeature-perl{a} libbio-graphics-perl{a} libbio-perl-perl{a} libbrotli1{a} libcapture-tiny-perl{a} libcgi-pm-perl{a} libcgi-session-perl{a} libclass-data-inheritable-perl{a} libclone-perl{a} libcom-err2{a} libcommon-sense-perl{a} libcurl4t64{a} libdata-stag-perl{a} libdav1d7{a} libdbd-pg-perl{a} libdbd-sqlite3-perl{a} libdbi-perl{a} libde265-0{a} libdebhelper-perl{a} libdeflate0{a} libdevel-stacktrace-perl{a} libdevel-symdump-perl{a} libelf1t64{a} libencode-locale-perl{a} libexception-class-perl{a} libexpat1{a} libexpat1-dev{a} libexporter-tiny-perl{a} libffi8{a} libfile-listing-perl{a} libfile-stripnondeterminism-perl{a} libfontconfig1{a} libfreetype6{a} libfribidi0{a} libgav1-1{a} libgd-perl{a} libgd3{a} libglib2.0-0t64{a} libgnutls30t64{a} libgraphite2-3{a} libgssapi-krb5-2{a} libharfbuzz0b{a} libheif-plugin-dav1d{a} libheif-plugin-libde265{a} libheif1{a} libhtml-parser-perl{a} libhtml-tagset-perl{a} libhtml-tree-perl{a} libhttp-cookies-perl{a} libhttp-daemon-perl{a} libhttp-date-perl{a} libhttp-message-perl{a} libhttp-negotiate-perl{a} libicu72{a} libidn2-0{a} libimagequant0{a} libio-html-perl{a} libio-socket-ssl-perl{a} libio-string-perl{a} libjbig0{a} libjpeg62-turbo{a} libjs-prototype{a} libjs-scriptaculous{a} libjson-perl{a} libk5crypto3{a} libkeyutils1{a} libkrb5-3{a} libkrb5support0{a} libldap-dev{a} libldap2{a} libldap2-dev{a} liblerc4{a} liblist-moreutils-perl{a} liblist-moreutils-xs-perl{a} liblua5.4-0{a} liblwp-mediatypes-perl{a} liblwp-protocol-https-perl{a} libmagic-mgc{a} libmagic1t64{a} libmodule-build-perl{a} libnet-http-perl{a} libnet-ssleay-perl{a} libnghttp2-14{a} libnghttp3-9{a} libp11-kit0{a} libpcre2-16-0{a} libpcre2-32-0{a} libpcre2-dev{a} libpcre2-posix3{a} libpipeline1{a} libpng16-16t64{a} libpq5{a} libproc2-0{a} libpsl5t64{a} libpython3-stdlib{a} libpython3.13-minimal{a} libpython3.13-stdlib{a} libraqm0{a} librav1e0.7{a} libreadline8t64{a} librtmp1{a} libsasl2-2{a} libsasl2-modules-db{a} libsctp-dev{a} libsctp1{a} libsharpyuv0{a} libssh2-1t64{a} libstatistics-descriptive-perl{a} libstring-approx-perl{a} libsub-uplevel-perl{a} libsvtav1enc2{a} libtasn1-6{a} libterm-readkey-perl{a} libtest-deep-perl{a} libtest-differences-perl{a} libtest-exception-perl{a} libtest-most-perl{a} libtest-warn-perl{a} libtext-charwidth-perl{a} libtext-diff-perl{a} libtext-wrapi18n-perl{a} libtiff6{a} libtimedate-perl{a} libtool{a} libtry-tiny-perl{a} libuchardet0{a} libunistring5{a} liburi-perl{a} libvm-ec2-perl{a} libwebp7{a} libwww-perl{a} libwww-robotrules-perl{a} libx11-6{a} libx11-data{a} libxau6{a} libxcb1{a} libxdmcp6{a} libxml-libxml-perl{a} libxml-namespacesupport-perl{a} libxml-sax-base-perl{a} libxml-sax-perl{a} libxml-simple-perl{a} libxml2{a} libxpm4{a} libyuv0{a} m4{a} man-db{a} media-types{a} netbase{a} openssl{a} perl-openssl-defaults{a} po-debconf{a} procps{a} python3{a} python3-minimal{a} python3.13{a} python3.13-minimal{a} readline-common{a} rename{a} sensible-utils{a} sqlite3{a} tzdata{a} ucf{a} uuid-dev{a}
The following packages are RECOMMENDED but will NOT be installed:
bioperl-run curl javascript-common krb5-locales libace-perl libalgorithm-diff-xs-perl libalgorithm-munkres-perl libapache2-reload-perl libarchive-cpio-perl libarray-compare-perl libasync-interrupt-perl libberkeleydb-perl libbio-asn1-entrezgene-perl libbio-perl-run-perl libbio-scf-perl libbsd-resource-perl libcache-cache-perl libcgi-fast-perl libconvert-binary-c-perl libdata-dump-perl libdbd-mysql-perl libev-perl libevent-perl libfreezethaw-perl libgd-svg-perl libglib2.0-data libgraph-perl libgraphviz-perl libguard-perl libheif-plugin-aomenc libheif-plugin-x265 libhtml-form-perl libhtml-format-perl libhtml-tableextract-perl libio-compress-brotli-perl libjson-xs-perl libldap-common libltdl-dev libmail-sendmail-perl libmailtools-perl libmldbm-perl libmodule-signature-perl libpod-readme-perl libpostscript-perl libsasl2-modules libset-scalar-perl libsoap-lite-perl libsoftware-license-perl libsort-naturally-perl libspreadsheet-parseexcel-perl libspreadsheet-writeexcel-perl libsvg-graph-perl libsvg-perl libxml-dom-xpath-perl libxml-libxslt-perl libxml-parser-perl libxml-perl libxml-sax-expat-perl libxml-sax-writer-perl libxml-twig-perl libxml-writer-perl libyaml-perl linux-sysctl-defaults lynx perl-doc perl-tk psmisc publicsuffix shared-mime-info wget xdg-user-dirs
0 packages upgraded, 205 newly installed, 0 to remove and 0 not upgraded.
Need to get 65.3 MB of archives. After unpacking 228 MB will be used.
Writing extended state information...
Get: 1 http://deb.debian.org/debian unstable/main i386 libpython3.13-minimal i386 3.13.2-1 [859 kB]
Get: 2 http://deb.debian.org/debian unstable/main i386 libexpat1 i386 2.6.4-1 [107 kB]
Get: 3 http://deb.debian.org/debian unstable/main i386 python3.13-minimal i386 3.13.2-1 [2266 kB]
Get: 4 http://deb.debian.org/debian unstable/main i386 python3-minimal i386 3.13.2-2 [27.1 kB]
Get: 5 http://deb.debian.org/debian unstable/main i386 media-types all 12.0.0 [28.9 kB]
Get: 6 http://deb.debian.org/debian unstable/main i386 netbase all 6.4 [12.8 kB]
Get: 7 http://deb.debian.org/debian unstable/main i386 tzdata all 2025a-2 [259 kB]
Get: 8 http://deb.debian.org/debian unstable/main i386 libffi8 i386 3.4.7-1 [21.4 kB]
Get: 9 http://deb.debian.org/debian unstable/main i386 readline-common all 8.2-6 [69.4 kB]
Get: 10 http://deb.debian.org/debian unstable/main i386 libreadline8t64 i386 8.2-6 [173 kB]
Get: 11 http://deb.debian.org/debian unstable/main i386 libpython3.13-stdlib i386 3.13.2-1 [1985 kB]
Get: 12 http://deb.debian.org/debian unstable/main i386 python3.13 i386 3.13.2-1 [745 kB]
Get: 13 http://deb.debian.org/debian unstable/main i386 libpython3-stdlib i386 3.13.2-2 [10.1 kB]
Get: 14 http://deb.debian.org/debian unstable/main i386 python3 i386 3.13.2-2 [28.1 kB]
Get: 15 http://deb.debian.org/debian unstable/main i386 libproc2-0 i386 2:4.0.4-7 [66.0 kB]
Get: 16 http://deb.debian.org/debian unstable/main i386 procps i386 2:4.0.4-7 [876 kB]
Get: 17 http://deb.debian.org/debian unstable/main i386 sensible-utils all 0.0.24 [24.8 kB]
Get: 18 http://deb.debian.org/debian unstable/main i386 openssl i386 3.4.1-1 [1432 kB]
Get: 19 http://deb.debian.org/debian unstable/main i386 ca-certificates all 20241223 [164 kB]
Get: 20 http://deb.debian.org/debian unstable/main i386 libmagic-mgc i386 1:5.45-3+b1 [314 kB]
Get: 21 http://deb.debian.org/debian unstable/main i386 libmagic1t64 i386 1:5.45-3+b1 [115 kB]
Get: 22 http://deb.debian.org/debian unstable/main i386 file i386 1:5.45-3+b1 [43.2 kB]
Get: 23 http://deb.debian.org/debian unstable/main i386 gettext-base i386 0.23.1-1 [245 kB]
Get: 24 http://deb.debian.org/debian unstable/main i386 libuchardet0 i386 0.0.8-1+b2 [69.2 kB]
Get: 25 http://deb.debian.org/debian unstable/main i386 groff-base i386 1.23.0-7 [1199 kB]
Get: 26 http://deb.debian.org/debian unstable/main i386 bsdextrautils i386 2.40.4-5 [96.5 kB]
Get: 27 http://deb.debian.org/debian unstable/main i386 libpipeline1 i386 1.5.8-1 [41.2 kB]
Get: 28 http://deb.debian.org/debian unstable/main i386 man-db i386 2.13.0-1 [1428 kB]
Get: 29 http://deb.debian.org/debian unstable/main i386 libtext-charwidth-perl i386 0.04-11+b4 [9656 B]
Get: 30 http://deb.debian.org/debian unstable/main i386 libtext-wrapi18n-perl all 0.06-10 [8808 B]
Get: 31 http://deb.debian.org/debian unstable/main i386 ucf all 3.0050 [42.7 kB]
Get: 32 http://deb.debian.org/debian unstable/main i386 libapr1t64 i386 1.7.5-1 [114 kB]
Get: 33 http://deb.debian.org/debian unstable/main i386 libaprutil1t64 i386 1.6.3-3+b1 [96.0 kB]
Get: 34 http://deb.debian.org/debian unstable/main i386 libaprutil1-dbd-sqlite3 i386 1.6.3-3+b1 [14.5 kB]
Get: 35 http://deb.debian.org/debian unstable/main i386 libsasl2-modules-db i386 2.1.28+dfsg1-9 [20.8 kB]
Get: 36 http://deb.debian.org/debian unstable/main i386 libsasl2-2 i386 2.1.28+dfsg1-9 [61.2 kB]
Get: 37 http://deb.debian.org/debian unstable/main i386 libldap2 i386 2.6.9+dfsg-1 [205 kB]
Get: 38 http://deb.debian.org/debian unstable/main i386 libaprutil1-ldap i386 1.6.3-3+b1 [12.5 kB]
Get: 39 http://deb.debian.org/debian unstable/main i386 libbrotli1 i386 1.1.0-2+b7 [299 kB]
Get: 40 http://deb.debian.org/debian unstable/main i386 libkrb5support0 i386 1.21.3-4 [35.0 kB]
Get: 41 http://deb.debian.org/debian unstable/main i386 libcom-err2 i386 1.47.2-1 [24.3 kB]
Get: 42 http://deb.debian.org/debian unstable/main i386 libk5crypto3 i386 1.21.3-4 [83.7 kB]
Get: 43 http://deb.debian.org/debian unstable/main i386 libkeyutils1 i386 1.6.3-4 [9600 B]
Get: 44 http://deb.debian.org/debian unstable/main i386 libkrb5-3 i386 1.21.3-4 [354 kB]
Get: 45 http://deb.debian.org/debian unstable/main i386 libgssapi-krb5-2 i386 1.21.3-4 [149 kB]
Get: 46 http://deb.debian.org/debian unstable/main i386 libunistring5 i386 1.3-1 [458 kB]
Get: 47 http://deb.debian.org/debian unstable/main i386 libidn2-0 i386 2.3.7-2+b1 [130 kB]
Get: 48 http://deb.debian.org/debian unstable/main i386 libnghttp2-14 i386 1.64.0-1 [82.4 kB]
Get: 49 http://deb.debian.org/debian unstable/main i386 libnghttp3-9 i386 1.8.0-1 [78.7 kB]
Get: 50 http://deb.debian.org/debian unstable/main i386 libpsl5t64 i386 0.21.2-1.1+b1 [57.7 kB]
Get: 51 http://deb.debian.org/debian unstable/main i386 libp11-kit0 i386 0.25.5-3 [423 kB]
Get: 52 http://deb.debian.org/debian unstable/main i386 libtasn1-6 i386 4.20.0-2 [51.6 kB]
Get: 53 http://deb.debian.org/debian unstable/main i386 libgnutls30t64 i386 3.8.9-2 [1462 kB]
Get: 54 http://deb.debian.org/debian unstable/main i386 librtmp1 i386 2.4+20151223.gitfa8646d.1-2+b5 [62.4 kB]
Get: 55 http://deb.debian.org/debian unstable/main i386 libssh2-1t64 i386 1.11.1-1 [256 kB]
Get: 56 http://deb.debian.org/debian unstable/main i386 libcurl4t64 i386 8.12.1-3 [415 kB]
Get: 57 http://deb.debian.org/debian unstable/main i386 liblua5.4-0 i386 5.4.7-1+b2 [170 kB]
Get: 58 http://deb.debian.org/debian unstable/main i386 libicu72 i386 72.1-6 [9582 kB]
Get: 59 http://deb.debian.org/debian unstable/main i386 libxml2 i386 2.12.7+dfsg+really2.9.14-0.2+b2 [734 kB]
Get: 60 http://deb.debian.org/debian unstable/main i386 apache2-bin i386 2.4.63-1 [1466 kB]
Get: 61 http://deb.debian.org/debian unstable/main i386 m4 i386 1.4.19-7 [301 kB]
Get: 62 http://deb.debian.org/debian unstable/main i386 autoconf all 2.72-3 [493 kB]
Get: 63 http://deb.debian.org/debian unstable/main i386 autotools-dev all 20220109.1 [51.6 kB]
Get: 64 http://deb.debian.org/debian unstable/main i386 automake all 1:1.17-3 [862 kB]
Get: 65 http://deb.debian.org/debian unstable/main i386 autopoint all 0.23.1-1 [770 kB]
Get: 66 http://deb.debian.org/debian unstable/main i386 libdebhelper-perl all 13.24.1 [90.9 kB]
Get: 67 http://deb.debian.org/debian unstable/main i386 libtool all 2.5.4-4 [539 kB]
Get: 68 http://deb.debian.org/debian unstable/main i386 dh-autoreconf all 20 [17.1 kB]
Get: 69 http://deb.debian.org/debian unstable/main i386 libarchive-zip-perl all 1.68-1 [104 kB]
Get: 70 http://deb.debian.org/debian unstable/main i386 libfile-stripnondeterminism-perl all 1.14.1-2 [19.7 kB]
Get: 71 http://deb.debian.org/debian unstable/main i386 dh-strip-nondeterminism all 1.14.1-2 [8620 B]
Get: 72 http://deb.debian.org/debian unstable/main i386 libelf1t64 i386 0.192-4 [195 kB]
Get: 73 http://deb.debian.org/debian unstable/main i386 dwz i386 0.15-1+b1 [116 kB]
Get: 74 http://deb.debian.org/debian unstable/main i386 gettext i386 0.23.1-1 [1714 kB]
Get: 75 http://deb.debian.org/debian unstable/main i386 intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get: 76 http://deb.debian.org/debian unstable/main i386 po-debconf all 1.0.21+nmu1 [248 kB]
Get: 77 http://deb.debian.org/debian unstable/main i386 debhelper all 13.24.1 [920 kB]
Get: 78 http://deb.debian.org/debian unstable/main i386 uuid-dev i386 2.40.4-5 [48.1 kB]
Get: 79 http://deb.debian.org/debian unstable/main i386 libsctp1 i386 1.0.21+dfsg-1 [26.3 kB]
Get: 80 http://deb.debian.org/debian unstable/main i386 libsctp-dev i386 1.0.21+dfsg-1 [75.0 kB]
Get: 81 http://deb.debian.org/debian unstable/main i386 libapr1-dev i386 1.7.5-1 [785 kB]
Get: 82 http://deb.debian.org/debian unstable/main i386 libldap-dev i386 2.6.9+dfsg-1 [328 kB]
Get: 83 http://deb.debian.org/debian unstable/main i386 libldap2-dev all 2.6.9+dfsg-1 [27.9 kB]
Get: 84 http://deb.debian.org/debian unstable/main i386 libexpat1-dev i386 2.6.4-1 [165 kB]
Get: 85 http://deb.debian.org/debian unstable/main i386 libaprutil1-dev i386 1.6.3-3+b1 [424 kB]
Get: 86 http://deb.debian.org/debian unstable/main i386 libpcre2-16-0 i386 10.45-1 [278 kB]
Get: 87 http://deb.debian.org/debian unstable/main i386 libpcre2-32-0 i386 10.45-1 [267 kB]
Get: 88 http://deb.debian.org/debian unstable/main i386 libpcre2-posix3 i386 10.45-1 [63.6 kB]
Get: 89 http://deb.debian.org/debian unstable/main i386 libpcre2-dev i386 10.45-1 [858 kB]
Get: 90 http://deb.debian.org/debian unstable/main i386 apache2-dev i386 2.4.63-1 [317 kB]
Get: 91 http://deb.debian.org/debian unstable/main i386 libio-string-perl all 1.08-4 [12.1 kB]
Get: 92 http://deb.debian.org/debian unstable/main i386 libdata-stag-perl all 0.14-3 [448 kB]
Get: 93 http://deb.debian.org/debian unstable/main i386 libbio-perl-perl all 1.7.8-1 [2603 kB]
Get: 94 http://deb.debian.org/debian unstable/main i386 libclass-data-inheritable-perl all 0.10-1 [8632 B]
Get: 95 http://deb.debian.org/debian unstable/main i386 libdevel-stacktrace-perl all 2.0500-1 [26.4 kB]
Get: 96 http://deb.debian.org/debian unstable/main i386 libexception-class-perl all 1.45-1 [34.6 kB]
Get: 97 http://deb.debian.org/debian unstable/main i386 libtest-deep-perl all 1.204-1 [52.9 kB]
Get: 98 http://deb.debian.org/debian unstable/main i386 libcapture-tiny-perl all 0.50-1 [24.6 kB]
Get: 99 http://deb.debian.org/debian unstable/main i386 libalgorithm-diff-perl all 1.201-1 [43.3 kB]
Get: 100 http://deb.debian.org/debian unstable/main i386 libtext-diff-perl all 1.45-2 [27.2 kB]
Get: 101 http://deb.debian.org/debian unstable/main i386 libtest-differences-perl all 0.71-1 [17.9 kB]
Get: 102 http://deb.debian.org/debian unstable/main i386 libsub-uplevel-perl all 0.2800-3 [14.0 kB]
Get: 103 http://deb.debian.org/debian unstable/main i386 libtest-exception-perl all 0.43-3 [16.9 kB]
Get: 104 http://deb.debian.org/debian unstable/main i386 libtest-warn-perl all 0.37-2 [14.5 kB]
Get: 105 http://deb.debian.org/debian unstable/main i386 libtest-most-perl all 0.38-1 [25.1 kB]
Get: 106 http://deb.debian.org/debian unstable/main i386 bioperl all 1.7.8-1 [246 kB]
Get: 107 http://deb.debian.org/debian unstable/main i386 dh-exec i386 0.30 [26.2 kB]
Get: 108 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-mono all 2.37-8 [489 kB]
Get: 109 http://deb.debian.org/debian unstable/main i386 fonts-dejavu-core all 2.37-8 [840 kB]
Get: 110 http://deb.debian.org/debian unstable/main i386 fontconfig-config i386 2.15.0-2 [317 kB]
Get: 111 http://deb.debian.org/debian unstable/main i386 libabsl20230802 i386 20230802.1-4.2 [526 kB]
Get: 112 http://deb.debian.org/debian unstable/main i386 libanyevent-perl i386 7.170-2+b6 [384 kB]
Get: 113 http://deb.debian.org/debian unstable/main i386 libanyevent-cachedns-perl all 0.08-3 [7708 B]
Get: 114 http://deb.debian.org/debian unstable/main i386 libcommon-sense-perl i386 3.75-3+b5 [22.9 kB]
Get: 115 http://deb.debian.org/debian unstable/main i386 libanyevent-http-perl all 2.25-2 [35.2 kB]
Get: 116 http://deb.debian.org/debian unstable/main i386 libaom3 i386 3.12.0-1 [1903 kB]
Get: 117 http://deb.debian.org/debian unstable/main i386 libdevel-symdump-perl all 2.18-5 [15.8 kB]
Get: 118 http://deb.debian.org/debian unstable/main i386 liburi-perl all 5.30-1 [105 kB]
Get: 119 http://deb.debian.org/debian unstable/main i386 libencode-locale-perl all 1.05-3 [12.9 kB]
Get: 120 http://deb.debian.org/debian unstable/main i386 libtimedate-perl all 2.3300-2 [39.3 kB]
Get: 121 http://deb.debian.org/debian unstable/main i386 libhttp-date-perl all 6.06-1 [10.7 kB]
Get: 122 http://deb.debian.org/debian unstable/main i386 libfile-listing-perl all 6.16-1 [12.4 kB]
Get: 123 http://deb.debian.org/debian unstable/main i386 libhtml-tagset-perl all 3.24-1 [14.7 kB]
Get: 124 http://deb.debian.org/debian unstable/main i386 libhtml-parser-perl i386 3.83-1+b2 [101 kB]
Get: 125 http://deb.debian.org/debian unstable/main i386 libhtml-tree-perl all 5.07-3 [211 kB]
Get: 126 http://deb.debian.org/debian unstable/main i386 libclone-perl i386 0.47-1+b1 [14.0 kB]
Get: 127 http://deb.debian.org/debian unstable/main i386 libio-html-perl all 1.004-3 [16.2 kB]
Get: 128 http://deb.debian.org/debian unstable/main i386 liblwp-mediatypes-perl all 6.04-2 [20.2 kB]
Get: 129 http://deb.debian.org/debian unstable/main i386 libhttp-message-perl all 7.00-2 [79.8 kB]
Get: 130 http://deb.debian.org/debian unstable/main i386 libhttp-cookies-perl all 6.11-1 [19.1 kB]
Get: 131 http://deb.debian.org/debian unstable/main i386 libhttp-negotiate-perl all 6.01-2 [13.1 kB]
Get: 132 http://deb.debian.org/debian unstable/main i386 perl-openssl-defaults i386 7+b2 [6720 B]
Get: 133 http://deb.debian.org/debian unstable/main i386 libnet-ssleay-perl i386 1.94-3 [340 kB]
Get: 134 http://deb.debian.org/debian unstable/main i386 libio-socket-ssl-perl all 2.089-1 [223 kB]
Get: 135 http://deb.debian.org/debian unstable/main i386 libnet-http-perl all 6.23-1 [23.9 kB]
Get: 136 http://deb.debian.org/debian unstable/main i386 liblwp-protocol-https-perl all 6.14-1 [10.8 kB]
Get: 137 http://deb.debian.org/debian unstable/main i386 libtry-tiny-perl all 0.32-1 [22.9 kB]
Get: 138 http://deb.debian.org/debian unstable/main i386 libwww-robotrules-perl all 6.02-1 [12.9 kB]
Get: 139 http://deb.debian.org/debian unstable/main i386 libwww-perl all 6.78-1 [183 kB]
Get: 140 http://deb.debian.org/debian unstable/main i386 libapache2-mod-perl2 i386 2.0.13-2+b2 [823 kB]
Get: 141 http://deb.debian.org/debian unstable/main i386 libdbi-perl i386 1.647-1 [865 kB]
Get: 142 http://deb.debian.org/debian unstable/main i386 libapache-dbi-perl all 1.12-3 [48.5 kB]
Get: 143 http://deb.debian.org/debian unstable/main i386 libdav1d7 i386 1.5.1-1 [336 kB]
Get: 144 http://deb.debian.org/debian unstable/main i386 libgav1-1 i386 0.19.0-3 [326 kB]
Get: 145 http://deb.debian.org/debian unstable/main i386 librav1e0.7 i386 0.7.1-9+b1 [675 kB]
Get: 146 http://deb.debian.org/debian unstable/main i386 libsvtav1enc2 i386 2.3.0+dfsg-1 [1053 kB]
Get: 147 http://deb.debian.org/debian unstable/main i386 libjpeg62-turbo i386 1:2.1.5-3.1 [170 kB]
Get: 148 http://deb.debian.org/debian unstable/main i386 libyuv0 i386 0.0.1904.20250204-1 [112 kB]
Get: 149 http://deb.debian.org/debian unstable/main i386 libavif16 i386 1.2.0-1 [141 kB]
Get: 150 http://deb.debian.org/debian unstable/main i386 libbio-coordinate-perl all 1.7.1-4 [56.7 kB]
Get: 151 http://deb.debian.org/debian unstable/main i386 libbio-db-biofetch-perl all 1.7.3-4 [17.5 kB]
Get: 152 http://deb.debian.org/debian unstable/main i386 libcgi-pm-perl all 4.67-1 [217 kB]
Get: 153 http://deb.debian.org/debian unstable/main i386 libbio-db-gff-perl all 1.7.4-1 [273 kB]
Get: 154 http://deb.debian.org/debian unstable/main i386 libpq5 i386 17.4-1 [236 kB]
Get: 155 http://deb.debian.org/debian unstable/main i386 libdbd-pg-perl i386 3.18.0-1+b3 [215 kB]
Get: 156 http://deb.debian.org/debian unstable/main i386 libdbd-sqlite3-perl i386 1.76-1 [179 kB]
Get: 157 http://deb.debian.org/debian unstable/main i386 libbio-db-seqfeature-perl all 1.7.5-1 [166 kB]
Get: 158 http://deb.debian.org/debian unstable/main i386 libpng16-16t64 i386 1.6.47-1 [289 kB]
Get: 159 http://deb.debian.org/debian unstable/main i386 libfreetype6 i386 2.13.3+dfsg-1 [464 kB]
Get: 160 http://deb.debian.org/debian unstable/main i386 libfontconfig1 i386 2.15.0-2 [402 kB]
Get: 161 http://deb.debian.org/debian unstable/main i386 libsharpyuv0 i386 1.5.0-0.1 [115 kB]
Get: 162 http://deb.debian.org/debian unstable/main i386 libheif-plugin-dav1d i386 1.19.5-1+b1 [11.8 kB]
Get: 163 http://deb.debian.org/debian unstable/main i386 libde265-0 i386 1.0.15-1+b3 [198 kB]
Get: 164 http://deb.debian.org/debian unstable/main i386 libheif-plugin-libde265 i386 1.19.5-1+b1 [16.3 kB]
Get: 165 http://deb.debian.org/debian unstable/main i386 libheif1 i386 1.19.5-1+b1 [540 kB]
Get: 166 http://deb.debian.org/debian unstable/main i386 libimagequant0 i386 2.18.0-1+b2 [36.0 kB]
Get: 167 http://deb.debian.org/debian unstable/main i386 libfribidi0 i386 1.0.16-1 [27.0 kB]
Get: 168 http://deb.debian.org/debian unstable/main i386 libglib2.0-0t64 i386 2.83.5-1 [1583 kB]
Get: 169 http://deb.debian.org/debian unstable/main i386 libgraphite2-3 i386 1.3.14-2+b1 [77.8 kB]
Get: 170 http://deb.debian.org/debian unstable/main i386 libharfbuzz0b i386 10.2.0-1 [504 kB]
Get: 171 http://deb.debian.org/debian unstable/main i386 libraqm0 i386 0.10.2-1 [14.6 kB]
Get: 172 http://deb.debian.org/debian unstable/main i386 libdeflate0 i386 1.23-1+b1 [48.4 kB]
Get: 173 http://deb.debian.org/debian unstable/main i386 libjbig0 i386 2.1-6.1+b2 [32.2 kB]
Get: 174 http://deb.debian.org/debian unstable/main i386 liblerc4 i386 4.0.0+ds-5 [191 kB]
Get: 175 http://deb.debian.org/debian unstable/main i386 libwebp7 i386 1.5.0-0.1 [329 kB]
Get: 176 http://deb.debian.org/debian unstable/main i386 libtiff6 i386 4.5.1+git230720-5 [339 kB]
Get: 177 http://deb.debian.org/debian unstable/main i386 libxau6 i386 1:1.0.11-1 [20.7 kB]
Get: 178 http://deb.debian.org/debian unstable/main i386 libxdmcp6 i386 1:1.1.5-1 [28.2 kB]
Get: 179 http://deb.debian.org/debian unstable/main i386 libxcb1 i386 1.17.0-2+b1 [148 kB]
Get: 180 http://deb.debian.org/debian unstable/main i386 libx11-data all 2:1.8.10-2 [337 kB]
Get: 181 http://deb.debian.org/debian unstable/main i386 libx11-6 i386 2:1.8.10-2 [834 kB]
Get: 182 http://deb.debian.org/debian unstable/main i386 libxpm4 i386 1:3.5.17-1+b3 [58.3 kB]
Get: 183 http://deb.debian.org/debian unstable/main i386 libgd3 i386 2.3.3-12+b1 [131 kB]
Get: 184 http://deb.debian.org/debian unstable/main i386 libgd-perl i386 2.78-1+b3 [131 kB]
Get: 185 http://deb.debian.org/debian unstable/main i386 libbio-graphics-perl all 2.40-6 [610 kB]
Get: 186 http://deb.debian.org/debian unstable/main i386 libcgi-session-perl all 4.48-4 [118 kB]
Get: 187 http://deb.debian.org/debian unstable/main i386 libexporter-tiny-perl all 1.006002-1 [38.7 kB]
Get: 188 http://deb.debian.org/debian unstable/main i386 libhttp-daemon-perl all 6.16-1 [23.5 kB]
Get: 189 http://deb.debian.org/debian unstable/main i386 libjs-prototype all 1.7.3-2 [43.7 kB]
Get: 190 http://deb.debian.org/debian unstable/main i386 libjs-scriptaculous all 1.9.0-4 [110 kB]
Get: 191 http://deb.debian.org/debian unstable/main i386 libjson-perl all 4.10000-1 [87.5 kB]
Get: 192 http://deb.debian.org/debian unstable/main i386 liblist-moreutils-xs-perl i386 0.430-4+b2 [45.1 kB]
Get: 193 http://deb.debian.org/debian unstable/main i386 liblist-moreutils-perl all 0.430-2 [46.9 kB]
Get: 194 http://deb.debian.org/debian unstable/main i386 libmodule-build-perl all 0.423400-2 [252 kB]
Get: 195 http://deb.debian.org/debian unstable/main i386 libstatistics-descriptive-perl all 3.0801-1 [62.8 kB]
Get: 196 http://deb.debian.org/debian unstable/main i386 libstring-approx-perl i386 3.28-2+b4 [39.9 kB]
Get: 197 http://deb.debian.org/debian unstable/main i386 libterm-readkey-perl i386 2.38-2+b4 [25.4 kB]
Get: 198 http://deb.debian.org/debian unstable/main i386 libxml-namespacesupport-perl all 1.12-2 [15.1 kB]
Get: 199 http://deb.debian.org/debian unstable/main i386 libxml-sax-base-perl all 1.09-3 [20.6 kB]
Get: 200 http://deb.debian.org/debian unstable/main i386 libxml-sax-perl all 1.02+dfsg-4 [53.4 kB]
Get: 201 http://deb.debian.org/debian unstable/main i386 libxml-libxml-perl i386 2.0207+dfsg+really+2.0134-5+b2 [323 kB]
Get: 202 http://deb.debian.org/debian unstable/main i386 libxml-simple-perl all 2.25-2 [69.8 kB]
Get: 203 http://deb.debian.org/debian unstable/main i386 libvm-ec2-perl all 1.28-5 [632 kB]
Get: 204 http://deb.debian.org/debian unstable/main i386 rename all 2.02-1 [21.8 kB]
Get: 205 http://deb.debian.org/debian unstable/main i386 sqlite3 i386 3.46.1-1 [401 kB]
Fetched 65.3 MB in 4s (15.6 MB/s)
Preconfiguring packages ...
Selecting previously unselected package libpython3.13-minimal:i386.
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Unpacking libpython3.13-minimal:i386 (3.13.2-1) ...
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Unpacking python3.13-minimal (3.13.2-1) ...
Setting up libpython3.13-minimal:i386 (3.13.2-1) ...
Setting up libexpat1:i386 (2.6.4-1) ...
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Unpacking libffi8:i386 (3.4.7-1) ...
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Unpacking readline-common (8.2-6) ...
Selecting previously unselected package libreadline8t64:i386.
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Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8 to /lib/i386-linux-gnu/libhistory.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libhistory.so.8.2 to /lib/i386-linux-gnu/libhistory.so.8.2.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8 to /lib/i386-linux-gnu/libreadline.so.8.usr-is-merged by libreadline8t64'
Adding 'diversion of /lib/i386-linux-gnu/libreadline.so.8.2 to /lib/i386-linux-gnu/libreadline.so.8.2.usr-is-merged by libreadline8t64'
Unpacking libreadline8t64:i386 (8.2-6) ...
Selecting previously unselected package libpython3.13-stdlib:i386.
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Setting up python3-minimal (3.13.2-2) ...
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Unpacking python3 (3.13.2-2) ...
Selecting previously unselected package libproc2-0:i386.
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Unpacking gettext-base (0.23.1-1) ...
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Unpacking libuchardet0:i386 (0.0.8-1+b2) ...
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Unpacking groff-base (1.23.0-7) ...
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Unpacking bsdextrautils (2.40.4-5) ...
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Moving old data out of the way
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Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl'
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update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10...
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Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version
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update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50...
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Setting up apache2-dev (2.4.63-1) ...
Setting up libheif-plugin-dav1d:i386 (1.19.5-1+b1) ...
Setting up liblwp-protocol-https-perl (6.14-1) ...
Setting up libheif-plugin-libde265:i386 (1.19.5-1+b1) ...
Setting up libwww-perl (6.78-1) ...
Setting up libheif1:i386 (1.19.5-1+b1) ...
Setting up libapache2-mod-perl2 (2.0.13-2+b2) ...
Setting up libgd3:i386 (2.3.3-12+b1) ...
Setting up libbio-db-biofetch-perl (1.7.3-4) ...
Setting up libvm-ec2-perl (1.28-5) ...
Setting up libapache-dbi-perl (1.12-3) ...
Setting up libgd-perl (2.78-1+b3) ...
Setting up libbio-db-gff-perl (1.7.4-1) ...
Setting up libbio-db-seqfeature-perl (1.7.5-1) ...
Setting up libbio-graphics-perl (2.40-6) ...
Processing triggers for libc-bin (2.41-3) ...
Processing triggers for ca-certificates (20241223) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
Reading package lists...
Building dependency tree...
Reading state information...
Reading extended state information...
Initializing package states...
Writing extended state information...
Building tag database...
-> Finished parsing the build-deps
I: Building the package
I: Running cd /build/reproducible-path/gbrowse-2.56+dfsg/ && 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 > ../gbrowse_2.56+dfsg-12_source.changes
dpkg-buildpackage: info: source package gbrowse
dpkg-buildpackage: info: source version 2.56+dfsg-12
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 i386
debian/rules clean
dh clean --with apache2
dh_clean
debian/rules binary
dh binary --with apache2
dh_update_autotools_config
dh_autoreconf
debian/rules override_dh_auto_configure
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_auto_configure -- --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse
/usr/bin/perl Build.PL --installdirs vendor --config "optimize=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=i686-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/build/reproducible-path/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now" --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse
WARNING: the following files are missing in your kit:
contrib/ace2gff.pl
contrib/AxtPairwise_convert/axt2phy.pl
contrib/blast2gff.pl
contrib/conf_files/01.yeast.conf
contrib/conf_files/02.wormbase.conf
contrib/conf_files/03.fly.conf
contrib/conf_files/04.human.conf
contrib/conf_files/05.embl_proxy.conf
contrib/conf_files/06.biosql.conf
contrib/conf_files/07.chado.conf
contrib/conf_files/08.genbank.conf
contrib/conf_files/09.human_karyotype.conf
contrib/conf_files/index.html
contrib/conf_files/wormbase.syn
contrib/Coverage/INSTALL
contrib/Coverage/plugin/Coverage.pm
contrib/Coverage/README
contrib/gdump.pl
contrib/GeneFinder/genefinder/gfcode.c
contrib/GeneFinder/genefinder/README
contrib/GeneFinder/genefinder/readseq.c
contrib/GeneFinder/genefinder/readseq.h
contrib/GeneFinder/nematode_gftables/cds.hex
contrib/GeneFinder/nematode_gftables/gftables
contrib/GeneFinder/nematode_gftables/newnem.atg
contrib/GeneFinder/nematode_gftables/newnem.codon
contrib/GeneFinder/nematode_gftables/newnem.gene
contrib/GeneFinder/nematode_gftables/newnem.intron3
contrib/GeneFinder/nematode_gftables/newnem.intron5
contrib/GeneFinder/nematode_gftables/ref.hist
contrib/GeneFinder/nematode_gftables/zk637.atg
contrib/GeneFinder/nematode_gftables/zk637.intron3
contrib/GeneFinder/nematode_gftables/zk637.intron5
contrib/GeneFinder/nematode_gftables/zk637.trinuc
contrib/import_ncbi_mv_hs.pl
contrib/install_macosx/BuildConfig.pm
contrib/install_macosx/README.html
contrib/install_macosx/README.pod
contrib/install_macosx/scripts/build-gbrowse.pl
contrib/install_macosx/scripts/build-libraries.pl
contrib/README
contrib/SynView/cgi-lib/DAS/GUS.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment/Feature.pm
contrib/SynView/cgi-lib/DAS/Util/SqlParser.pm
contrib/SynView/gbrowse.conf/plasmodb.conf
contrib/SynView/gbrowse.conf/plasmodb.xml
contrib/SynView/MAL11/MAL11.conf
contrib/SynView/MAL11/MAL11.fa
contrib/SynView/MAL11/MAL11.gff3
contrib/SynView/README
contrib/TextDumper/README
contrib/TextDumper/TextDumper.pm
lib/Bio/DB/SeqFeature/Store/LoadHelper.pm
Please inform the author.
Checking prerequisites...
recommends:
* Bio::DB::BigFile is not installed
* Bio::DB::Sam is not installed
* Bio::Das is not installed
* Crypt::SSLeay is not installed
* DBD::mysql is not installed
* DB_File::Lock is not installed
* FCGI is not installed
* File::NFSLock is not installed
* GD::SVG is not installed
* Net::OpenID::Consumer is not installed
* Net::SMTP::SSL is not installed
* Parse::Apache::ServerStatus is not installed
* Template is not installed
* Do not worry if some "recommended" prerequisites are missing. You can install *
* them later if you need the features they provide. Do not proceed with the *
* install if any of "REQUIRED" prerequisites are missing. *
* *
* The optional Safe::World module does not currently run on Perl 5.10 or *
* higher, and so cannot be installed. *
ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions
of the modules indicated above before proceeding with this installation
Run 'Build installdeps' to install missing prerequisites.
**** WARNING *****************************************************************************************
If you are upgrading from an earlier version of GBrowse and wish to use named user accounts, please
set "user_accounts" to 1 in /etc/gbrowse2/GBrowse.conf and run bin/gbrowse_metadb_config.pl to
create/update your user account database.
See /etc/gbrowse2/GBrowse.conf.new for suggested settings.
******************************************************************************************************
Now run:
./Build test
./Build demo (optional)
./Build install (as superuser/administrator)
-or-
./Build install_slave (optional, for slave installations)
Other useful targets:
./Build register (to register your copy of GBrowse)
./Build reconfig (to reconfigure install locations)
./Build demostop (to stop the demo)
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'GBrowse' version '2.56'
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_auto_build
/usr/bin/perl Build
NOTE: Run ./Build reconfig to change existing configuration.
Building GBrowse
i686-linux-gnu-gcc -I/build/reproducible-path/gbrowse-2.56+dfsg/libalign -I/usr/lib/i386-linux-gnu/perl/5.40/CORE '-DVERSION="2.56"' '-DXS_VERSION="2.56"' -fPIC -c -D_REENTRANT -D_GNU_SOURCE -DDEBIAN -fwrapv -fno-strict-aliasing -pipe -I/usr/local/include -D_LARGEFILE_SOURCE '-D_FILE_OFFSET_BITS=64' -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/build/reproducible-path/gbrowse-2.56+dfsg=.' -fstack-protector-strong -Wformat '-Werror=format-security' -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/build/reproducible-path/gbrowse-2.56+dfsg=.' -fstack-protector-strong -Wformat '-Werror=format-security' -Wdate-time '-D_FORTIFY_SOURCE=2' -o lib/Bio/Graphics/Browser2/CAlign.o lib/Bio/Graphics/Browser2/CAlign.c
ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs')
i686-linux-gnu-gcc -g -O2 '-Werror=implicit-function-declaration' '-ffile-prefix-map=/build/reproducible-path/gbrowse-2.56+dfsg=.' -fstack-protector-strong -Wformat '-Werror=format-security' -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong -o blib/arch/auto/Bio/Graphics/Browser2/CAlign/CAlign.so lib/Bio/Graphics/Browser2/CAlign.o
Performing variable substitutions in blib/conf/aws_balancer.conf
Performing variable substitutions in blib/conf/detail_select_menu.conf
Performing variable substitutions in blib/conf/enzymes.txt
Performing variable substitutions in blib/conf/GBrowse.conf
Performing variable substitutions in blib/conf/log4perl.conf
Performing variable substitutions in blib/conf/MobyServices/moby.conf
Performing variable substitutions in blib/conf/pop_demo.conf
Performing variable substitutions in blib/conf/renderfarm.conf
Performing variable substitutions in blib/conf/slave_preload.conf
Performing variable substitutions in blib/conf/submitter_plugin.conf
Performing variable substitutions in blib/conf/synteny/oryza.synconf.disabled.conf
Performing variable substitutions in blib/conf/synteny/rice_synteny.conf
Performing variable substitutions in blib/conf/synteny/wild_rice_synteny.conf
Performing variable substitutions in blib/conf/themes/solid_gray_colors
Performing variable substitutions in blib/conf/themes/transparent_colors
Performing variable substitutions in blib/conf/themes/warm_colors
Performing variable substitutions in blib/conf/volvox.conf
Performing variable substitutions in blib/conf/yeast_chr1+2.conf
Performing variable substitutions in blib/conf/yeast_renderfarm.conf
Performing variable substitutions in blib/conf/yeast_simple.conf
Performing variable substitutions in blib/htdocs/annotation_help.html
Performing variable substitutions in blib/htdocs/cloud_index.html
Performing variable substitutions in blib/htdocs/example_scripts/index.html
Performing variable substitutions in blib/htdocs/example_scripts/README
Performing variable substitutions in blib/htdocs/gbrowse_karyotype_help.html
Performing variable substitutions in blib/htdocs/gbrowse_syn_help.html
Performing variable substitutions in blib/htdocs/general_help.html
Performing variable substitutions in blib/htdocs/index.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_core.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_extra.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final_withPhylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_halfway.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_Phylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_quarter.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_refactored.conf
Performing variable substitutions in blib/htdocs/tutorial/data_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.phyTreeEdit.html
Performing variable substitutions in blib/htdocs/vbox_index.html
Use of uninitialized value in pattern match (m//) at /build/reproducible-path/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
debian/rules override_dh_auto_test
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_auto_test -- TEST_FILES="t/00.compile.t t/01.yeast.t t/02.rearchitecture.t t/05.deferredrendering.t t/07.balancer.t t/08.calign.t"
/usr/bin/perl Build test --verbose 1 "TEST_FILES=t/00.compile.t t/01.yeast.t t/02.rearchitecture.t t/05.deferredrendering.t t/07.balancer.t t/08.calign.t"
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /build/reproducible-path/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
t/00.compile.t ............
ok 1 - cgi-bin/das compiled ok
ok 2 - cgi-bin/das stderr said "syntax OK"
ok 3 - cgi-bin/das nothing on stdout
ok 4 - cgi-bin/gbgff compiled ok
ok 5 - cgi-bin/gbgff stderr said "syntax OK"
ok 6 - cgi-bin/gbgff nothing on stdout
ok 7 - cgi-bin/gbrowse compiled ok
ok 8 - cgi-bin/gbrowse stderr said "syntax OK"
ok 9 - cgi-bin/gbrowse nothing on stdout
ok 10 - cgi-bin/gbrowse_details compiled ok
ok 11 - cgi-bin/gbrowse_details stderr said "syntax OK"
ok 12 - cgi-bin/gbrowse_details nothing on stdout
ok 13 # skip explicitly skipping cgi-bin/gbrowse_gmap
ok 14 - cgi-bin/gbrowse_img compiled ok
ok 15 - cgi-bin/gbrowse_img stderr said "syntax OK"
ok 16 - cgi-bin/gbrowse_img nothing on stdout
ok 17 - cgi-bin/gbrowse_key_img compiled ok
ok 18 - cgi-bin/gbrowse_key_img stderr said "syntax OK"
ok 19 - cgi-bin/gbrowse_key_img nothing on stdout
ok 20 - cgi-bin/gbrowse_login compiled ok
ok 21 - cgi-bin/gbrowse_login stderr said "syntax OK"
ok 22 - cgi-bin/gbrowse_login nothing on stdout
ok 23 - cgi-bin/gbrowse_syn compiled ok
ok 24 - cgi-bin/gbrowse_syn stderr said "syntax OK"
ok 25 - cgi-bin/gbrowse_syn nothing on stdout
ok 26 - bin/auto_install_databases.pl compiled ok
ok 27 - bin/auto_install_databases.pl stderr said "syntax OK"
ok 28 - bin/auto_install_databases.pl nothing on stdout
ok 29 - bin/bed2gff3.pl compiled ok
ok 30 - bin/bed2gff3.pl stderr said "syntax OK"
ok 31 - bin/bed2gff3.pl nothing on stdout
ok 32 - bin/bp_load_gff.pl compiled ok
ok 33 - bin/bp_load_gff.pl stderr said "syntax OK"
ok 34 - bin/bp_load_gff.pl nothing on stdout
ok 35 # skip explicitly skipping bin/gbrowse_aws_balancer.pl
ok 36 - bin/gbrowse_change_passwd.pl compiled ok
ok 37 - bin/gbrowse_change_passwd.pl stderr said "syntax OK"
ok 38 - bin/gbrowse_change_passwd.pl nothing on stdout
ok 39 - bin/gbrowse_clean.pl compiled ok
ok 40 - bin/gbrowse_clean.pl stderr said "syntax OK"
ok 41 - bin/gbrowse_clean.pl nothing on stdout
ok 42 - bin/gbrowse_configure_slaves.pl compiled ok
ok 43 - bin/gbrowse_configure_slaves.pl stderr said "syntax OK"
ok 44 - bin/gbrowse_configure_slaves.pl nothing on stdout
ok 45 - bin/gbrowse_create_account.pl compiled ok
ok 46 - bin/gbrowse_create_account.pl stderr said "syntax OK"
ok 47 - bin/gbrowse_create_account.pl nothing on stdout
ok 48 # skip explicitly skipping bin/gbrowse_grow_cloud_vol.pl
ok 49 - bin/gbrowse_import_ucsc_db.pl compiled ok
ok 50 - bin/gbrowse_import_ucsc_db.pl stderr said "syntax OK"
ok 51 - bin/gbrowse_import_ucsc_db.pl nothing on stdout
ok 52 - bin/gbrowse_metadb_config.pl compiled ok
ok 53 - bin/gbrowse_metadb_config.pl stderr said "syntax OK"
ok 54 - bin/gbrowse_metadb_config.pl nothing on stdout
ok 55 # skip explicitly skipping bin/gbrowse_netinstall.pl
ok 56 # skip explicitly skipping bin/gbrowse_netinstall2.pl
ok 57 - bin/gbrowse_set_admin_passwd.pl compiled ok
ok 58 - bin/gbrowse_set_admin_passwd.pl stderr said "syntax OK"
ok 59 - bin/gbrowse_set_admin_passwd.pl nothing on stdout
ok 60 - bin/gbrowse_slave compiled ok
ok 61 - bin/gbrowse_slave stderr said "syntax OK"
ok 62 - bin/gbrowse_slave nothing on stdout
ok 63 # skip explicitly skipping bin/gbrowse_slave_start_aws.sh
ok 64 - bin/gbrowse_syn_load_alignment_database.pl compiled ok
ok 65 - bin/gbrowse_syn_load_alignment_database.pl stderr said "syntax OK"
ok 66 - bin/gbrowse_syn_load_alignment_database.pl nothing on stdout
ok 67 - bin/gbrowse_syn_load_alignments_msa.pl compiled ok
ok 68 - bin/gbrowse_syn_load_alignments_msa.pl stderr said "syntax OK"
ok 69 - bin/gbrowse_syn_load_alignments_msa.pl nothing on stdout
ok 70 # skip explicitly skipping bin/gbrowse_sync_aws_slave.pl
ok 71 - bin/gtf2gff3.pl compiled ok
ok 72 - bin/gtf2gff3.pl stderr said "syntax OK"
ok 73 - bin/gtf2gff3.pl nothing on stdout
ok 74 - bin/load_genbank.pl compiled ok
ok 75 - bin/load_genbank.pl stderr said "syntax OK"
ok 76 - bin/load_genbank.pl nothing on stdout
ok 77 # skip explicitly skipping bin/make_das_conf.pl
ok 78 - bin/process_bamfiles.pl compiled ok
ok 79 - bin/process_bamfiles.pl stderr said "syntax OK"
ok 80 - bin/process_bamfiles.pl nothing on stdout
ok 81 - bin/process_gadfly.pl compiled ok
ok 82 - bin/process_gadfly.pl stderr said "syntax OK"
ok 83 - bin/process_gadfly.pl nothing on stdout
ok 84 - bin/process_ncbi_human.pl compiled ok
ok 85 - bin/process_ncbi_human.pl stderr said "syntax OK"
ok 86 - bin/process_ncbi_human.pl nothing on stdout
ok 87 - bin/process_sgd.pl compiled ok
ok 88 - bin/process_sgd.pl stderr said "syntax OK"
ok 89 - bin/process_sgd.pl nothing on stdout
ok 90 - bin/report_missing_language_tags.pl compiled ok
ok 91 - bin/report_missing_language_tags.pl stderr said "syntax OK"
ok 92 - bin/report_missing_language_tags.pl nothing on stdout
ok 93 - bin/scan_gbrowse.pl compiled ok
ok 94 - bin/scan_gbrowse.pl stderr said "syntax OK"
ok 95 - bin/scan_gbrowse.pl nothing on stdout
ok 96 - bin/split_wig.pl compiled ok
ok 97 - bin/split_wig.pl stderr said "syntax OK"
ok 98 - bin/split_wig.pl nothing on stdout
ok 99 - bin/ucsc_genes2gff.pl compiled ok
ok 100 - bin/ucsc_genes2gff.pl stderr said "syntax OK"
ok 101 - bin/ucsc_genes2gff.pl nothing on stdout
ok 102 - bin/wiggle2gff3.pl compiled ok
ok 103 - bin/wiggle2gff3.pl stderr said "syntax OK"
ok 104 - bin/wiggle2gff3.pl nothing on stdout
1..104
ok
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
t/01.yeast.t ..............
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t/02.rearchitecture.t .....
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Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value $_[5] in pack at /usr/share/perl5/Bio/DB/IndexedBase.pm line 1005, <GEN171> line 2.
Use of uninitialized value $_[5] in pack at /usr/share/perl5/Bio/DB/IndexedBase.pm line 1005, <GEN176> line 2.
t/03.render.t .............
1..150
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ok
Sometimes this test gets 'stuck'. If this happens, kill the test and Build test again.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Can't locate object method "png" via package "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0��\0\0\0���|�3C\0\0\0\tpHYs\0"..."\177���>0\x{bd}[\x{bf}\x{8d}�\x{be}<�\x{9b}�\25\x{bd}+\x{bd}�y\x{95}\36W\x{ad}�\x{94}\x{9e}�\x{bb}�!��EU+=\x{a5}\x{a7}�\x{ae}xHx"... (perhaps you forgot to load "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0��\0\0\0���|�3C\0\0\0\tpHYs\0"..."\177���>0\x{bd}[\x{bf}\x{8d}�\x{be}<�\x{9b}�\25\x{bd}+\x{bd}�y\x{95}\36W\x{ad}�\x{94}\x{9e}�\x{bb}�!��EU+=\x{a5}\x{a7}�\x{ae}xHx"...?) at /build/reproducible-path/gbrowse-2.56+dfsg/t/../lib/Bio/Graphics/Browser2/CachedTrack.pm line 154, <> line 45.
Can't locate object method "png" via package "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0�����\0\0\0(���\0\0\0\tpHYs\0"..."-I�\35\x{ab}w�m�\x{f7}�\x{b8}\37V/�]�k\x{8d}\x{ab}�\x{95}\x{ac}U=UO�;�!���Y\x{ab}z�\x{9e}�w\x{86}C\x{86}�\x{83}\x{b3}V�T=U�\f"... (perhaps you forgot to load "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0�����\0\0\0(���\0\0\0\tpHYs\0"..."-I�\35\x{ab}w�m�\x{f7}�\x{b8}\37V/�]�k\x{8d}\x{ab}�\x{95}\x{ac}U=UO�;�!���Y\x{ab}z�\x{9e}�w\x{86}C\x{86}�\x{83}\x{b3}V�T=U�\f"...?) at /build/reproducible-path/gbrowse-2.56+dfsg/t/../lib/Bio/Graphics/Browser2/CachedTrack.pm line 154, <> line 45.
t/04.remoteserver.t .......
1..43
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ok
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Can't locate object method "png" via package "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0�����\0\0\0(���\0\0\0\tpHYs\0"..."-I�\35\x{ab}w�m�\x{f7}�\x{b8}\37V/�]�k\x{8d}\x{ab}�\x{95}\x{ac}U=UO�;�!���Y\x{ab}z�\x{9e}�w\x{86}C\x{86}�\x{83}\x{b3}V�T=U�\f"... (perhaps you forgot to load "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0�����\0\0\0(���\0\0\0\tpHYs\0"..."-I�\35\x{ab}w�m�\x{f7}�\x{b8}\37V/�]�k\x{8d}\x{ab}�\x{95}\x{ac}U=UO�;�!���Y\x{ab}z�\x{9e}�w\x{86}C\x{86}�\x{83}\x{b3}V�T=U�\f"...?) at /build/reproducible-path/gbrowse-2.56+dfsg/t/../lib/Bio/Graphics/Browser2/CachedTrack.pm line 154, <> line 45.
Can't locate object method "png" via package "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0��\0\0\0���|�3C\0\0\0\tpHYs\0"..."\177���>0\x{bd}[\x{bf}\x{8d}�\x{be}<�\x{9b}�\25\x{bd}+\x{bd}�y\x{95}\36W\x{ad}�\x{94}\x{9e}�\x{bb}�!��EU+=\x{a5}\x{a7}�\x{ae}xHx"... (perhaps you forgot to load "\x{89}PNG\r\n\32\n\0\0\0\rIHDR\0\0\3z\0\0\0E\4\3\0\0\0�\x{b9}\x{89}\x{ae}\0\0\0\17PLTE��\x{b3}���\0��\0\0\0���|�3C\0\0\0\tpHYs\0"..."\177���>0\x{bd}[\x{bf}\x{8d}�\x{be}<�\x{9b}�\25\x{bd}+\x{bd}�y\x{95}\36W\x{ad}�\x{94}\x{9e}�\x{bb}�!��EU+=\x{a5}\x{a7}�\x{ae}xHx"...?) at /build/reproducible-path/gbrowse-2.56+dfsg/t/../lib/Bio/Graphics/Browser2/CachedTrack.pm line 154, <> line 45.
t/05.deferredrendering.t ..
1..19
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ok
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
Use of uninitialized value in subtraction (-) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 778.
Use of uninitialized value $curr_line in pattern match (m//) at /usr/share/perl5/Bio/DB/IndexedBase.pm line 781.
t/06.featuresearch.t ......
1..26
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ok
t/07.balancer.t ........... skipped: Optional module Parse::Apache::ServerStatus not installed
t/07.karyotype.t ..........
1..3
ok 1
ok 2
ok 3
ok
t/08.calign.t .............
1..6
# Running under perl version 5.040001 for linux
# Current time local: Fri Mar 7 08:36:24 2025
# Current time GMT: Fri Mar 7 20:36:24 2025
# Using Test.pm version 1.31
ok 1
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ok
All tests successful.
Files=10, Tests=448, 58 wallclock secs ( 0.12 usr 0.06 sys + 28.66 cusr 5.86 csys = 34.70 CPU)
Result: PASS
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
create-stamp debian/debhelper-build-stamp
dh_prep
debian/rules override_dh_installdirs
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
# svn(-buildpackage) seems to ignore the x bit
chmod +x debian/gbrowse-calign.dirs
dh_installdirs
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
debian/rules override_dh_auto_install
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
./Build --install_base=debian/gbrowse debianinstall
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /build/reproducible-path/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
Installing debian/gbrowse/man/man1/ucsc_genes2gff.pl.1p
Installing debian/gbrowse/man/man1/gtf2gff3.pl.1p
Installing debian/gbrowse/man/man1/bed2gff3.pl.1p
Installing debian/gbrowse/man/man1/load_genbank.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_grow_cloud_vol.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_aws_balancer.pl.1p
Installing debian/gbrowse/man/man1/make_das_conf.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_sync_aws_slave.pl.1p
Installing debian/gbrowse/man/man1/wiggle2gff3.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_clean.pl.1p
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbgff
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_login
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_syn
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_key_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_gmap
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_details
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/das
Installing debian/gbrowse/etc/gbrowse/yeast_renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/enzymes.txt
Installing debian/gbrowse/etc/gbrowse/submitter_plugin.conf
Installing debian/gbrowse/etc/gbrowse/renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/yeast_chr1+2.conf
Installing debian/gbrowse/etc/gbrowse/GBrowse.conf
Installing debian/gbrowse/etc/gbrowse/volvox.conf
Installing debian/gbrowse/etc/gbrowse/yeast_simple.conf
Installing debian/gbrowse/etc/gbrowse/detail_select_menu.conf
Installing debian/gbrowse/etc/gbrowse/log4perl.conf
Installing debian/gbrowse/etc/gbrowse/aws_balancer.conf
Installing debian/gbrowse/etc/gbrowse/pop_demo.conf
Installing debian/gbrowse/etc/gbrowse/slave_preload.conf
Installing debian/gbrowse/etc/gbrowse/synteny/oryza.synconf.disabled.conf
Installing debian/gbrowse/etc/gbrowse/synteny/rice_synteny.conf
Installing debian/gbrowse/etc/gbrowse/synteny/wild_rice_synteny.conf
Installing debian/gbrowse/etc/gbrowse/plugins/BatchDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Spectrogram.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CreateBlastDB.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SourceTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PrimerDesigner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PamAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RestrictionAnnotator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/LDAPAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RandomGene.pm
Installing debian/gbrowse/etc/gbrowse/plugins/OligoFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SinWave.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Blat.pm
Installing debian/gbrowse/etc/gbrowse/plugins/ProteinDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/GeneFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AlignTwoSequences.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestAuthenticator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SequenceDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SimpleTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/test.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FBTableDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Submitter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FilterTest.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FastaDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CMapDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AttributeHiliter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Aligner.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_formatted_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_xml_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/moby.conf
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_jpeg_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.PMS
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_gif_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_html_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_plain_renderer.pm
Installing debian/gbrowse/etc/gbrowse/themes/solid_gray_colors
Installing debian/gbrowse/etc/gbrowse/themes/transparent_colors
Installing debian/gbrowse/etc/gbrowse/themes/warm_colors
Installing debian/gbrowse/etc/gbrowse/languages/ja.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh.pm
Installing debian/gbrowse/etc/gbrowse/languages/is.pm
Installing debian/gbrowse/etc/gbrowse/languages/de.pm
Installing debian/gbrowse/etc/gbrowse/languages/fr.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh_cn.pm
Installing debian/gbrowse/etc/gbrowse/languages/ru.pm
Installing debian/gbrowse/etc/gbrowse/languages/es.pm
Installing debian/gbrowse/etc/gbrowse/languages/en.pm
Installing debian/gbrowse/etc/gbrowse/languages/pl.pm
Installing debian/gbrowse/etc/gbrowse/languages/nl.pm
Installing debian/gbrowse/etc/gbrowse/languages/it.pm
Installing debian/gbrowse/etc/gbrowse/languages/POSIX.pm
Installing debian/gbrowse/etc/gbrowse/languages/ko.pm
Installing debian/gbrowse/var/lib/gbrowse/databases/pop_demo/pop_demo.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/rice/rice.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/wild_rice/wild_rice.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/alignments/rice.aln.gz
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_chr1+2/dummy.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_chr1+2/yeast_chr1+2.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/admin_uploads/README
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/mouse_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/human_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/rat_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr2.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr1.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chromosomes.gff3
Installing debian/gbrowse/usr/share/gbrowse/htdocs/annotation_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_syn_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/vbox_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/cloud_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html.zh
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_karyotype_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gmod_cog.jpeg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_upload_data.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_upload_file.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_new_sessionid.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_get_sessionid.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/README
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/test_file.bed
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/builder.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/ajax_upload.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/prototype.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/snapshotManager.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/unittest.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/balloon.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/track_configure.js
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Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/Tagger.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/Tagger/mysql.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/Tagger/Tag.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/SeqFeature/Store/Alias.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/SeqFeature/Store/BedLoader.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/GFF/Aggregator/reftranscript.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/GFF/Aggregator/waba_alignment.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/GFF/Aggregator/wormbase_gene.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/DB/GFF/Aggregator/match_gap.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Karyotype.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/GBrowseFeature.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/CAlign.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/RenderPanels.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/I18n.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Region.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/GFFhelper.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/OptionPick.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/RegionSearch.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Plugin.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataSource.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/UserDB.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/ExternalData.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/SubtrackTable.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/PadAlignment.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/SendMail.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/TrackDumper.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/CachedTrack.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/AuthorizedFeatureFile.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Shellwords.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Markup.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Realign.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/RemoteSet.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataBase.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Util.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/PluginSet.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/UserTracks.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Action.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Session.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/archive.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/wiggle.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/gff.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/useq.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bigwig.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/featurefile.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bed.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/gff3.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bigbed.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/sam.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/wig2bigwig.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bam.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/generic.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Plugin/AuthPlugin.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Database.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Filesystem.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/TrackDumper/RichSeqMaker.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/SnapshotManager.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/Login.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/TrackConfig.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave/AWS_Balancer.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave/Status.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML/TrackListing.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML/TrackListing/Categories.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/CGI/Toggle.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/GBrowse/ConfigData.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/DB/SyntenyIO.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/DB/SyntenyBlock.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/Graphics/Browser.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/Graphics/Browser/I18n.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/Graphics/Browser/Synteny.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/Graphics/Browser/PageSettings.pm
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/Legacy/Graphics/Browser/Util.pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RegionSearch.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Markup.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render::Slave::Status.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RenderPanels.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::OptionPick.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PluginSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RemoteSet.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::reftranscript.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Util.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::waba_alignment.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataSource.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::wormbase_gene.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::archive.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Region.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::GFFhelper.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataBase.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::AuthorizedFeatureFile.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger::Tag.3pm
Installing debian/gbrowse/man/man3/GBrowse::ConfigData.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Realign.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render::Slave::AWS_Balancer.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::match_gap.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PadAlignment.3pm
Installing debian/gbrowse/man/man3/Legacy::Graphics::Browser.3pm
Installing debian/gbrowse/man/man3/Bio::DB::SeqFeature::Store::Alias.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::useq.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin::AuthPlugin.3pm
Installing debian/gbrowse/man/man3/CGI::Toggle.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin.3pm
Installing debian/gbrowse/bin/gbrowse_create_account.pl
Installing debian/gbrowse/bin/gbrowse_metadb_config.pl
Installing debian/gbrowse/bin/gbrowse_change_passwd.pl
Installing debian/gbrowse/bin/ucsc_genes2gff.pl
Installing debian/gbrowse/bin/gbrowse_aws_balancer.pl
Installing debian/gbrowse/bin/gbrowse_slave
Installing debian/gbrowse/bin/gtf2gff3.pl
Installing debian/gbrowse/bin/make_das_conf.pl
Installing debian/gbrowse/bin/bed2gff3.pl
Installing debian/gbrowse/bin/gbrowse_clean.pl
Installing debian/gbrowse/bin/gbrowse_set_admin_passwd.pl
Installing debian/gbrowse/bin/gbrowse_sync_aws_slave.pl
Installing debian/gbrowse/bin/load_genbank.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignment_database.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignments_msa.pl
Installing debian/gbrowse/bin/scan_gbrowse.pl
Installing debian/gbrowse/bin/wiggle2gff3.pl
Installing debian/gbrowse/bin/gbrowse_import_ucsc_db.pl
Installing debian/gbrowse/bin/gbrowse_configure_slaves.pl
Installing debian/gbrowse/bin/gbrowse_grow_cloud_vol.pl
#./Build apache_conf > debian/gbrowse/etc/gbrowse/gbrowse_apache2.conf
perl Build.PL --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse --installetc=y
WARNING: the following files are missing in your kit:
contrib/ace2gff.pl
contrib/AxtPairwise_convert/axt2phy.pl
contrib/blast2gff.pl
contrib/conf_files/01.yeast.conf
contrib/conf_files/02.wormbase.conf
contrib/conf_files/03.fly.conf
contrib/conf_files/04.human.conf
contrib/conf_files/05.embl_proxy.conf
contrib/conf_files/06.biosql.conf
contrib/conf_files/07.chado.conf
contrib/conf_files/08.genbank.conf
contrib/conf_files/09.human_karyotype.conf
contrib/conf_files/index.html
contrib/conf_files/wormbase.syn
contrib/Coverage/INSTALL
contrib/Coverage/plugin/Coverage.pm
contrib/Coverage/README
contrib/gdump.pl
contrib/GeneFinder/genefinder/gfcode.c
contrib/GeneFinder/genefinder/README
contrib/GeneFinder/genefinder/readseq.c
contrib/GeneFinder/genefinder/readseq.h
contrib/GeneFinder/nematode_gftables/cds.hex
contrib/GeneFinder/nematode_gftables/gftables
contrib/GeneFinder/nematode_gftables/newnem.atg
contrib/GeneFinder/nematode_gftables/newnem.codon
contrib/GeneFinder/nematode_gftables/newnem.gene
contrib/GeneFinder/nematode_gftables/newnem.intron3
contrib/GeneFinder/nematode_gftables/newnem.intron5
contrib/GeneFinder/nematode_gftables/ref.hist
contrib/GeneFinder/nematode_gftables/zk637.atg
contrib/GeneFinder/nematode_gftables/zk637.intron3
contrib/GeneFinder/nematode_gftables/zk637.intron5
contrib/GeneFinder/nematode_gftables/zk637.trinuc
contrib/import_ncbi_mv_hs.pl
contrib/install_macosx/BuildConfig.pm
contrib/install_macosx/README.html
contrib/install_macosx/README.pod
contrib/install_macosx/scripts/build-gbrowse.pl
contrib/install_macosx/scripts/build-libraries.pl
contrib/README
contrib/SynView/cgi-lib/DAS/GUS.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment/Feature.pm
contrib/SynView/cgi-lib/DAS/Util/SqlParser.pm
contrib/SynView/gbrowse.conf/plasmodb.conf
contrib/SynView/gbrowse.conf/plasmodb.xml
contrib/SynView/MAL11/MAL11.conf
contrib/SynView/MAL11/MAL11.fa
contrib/SynView/MAL11/MAL11.gff3
contrib/SynView/README
contrib/TextDumper/README
contrib/TextDumper/TextDumper.pm
lib/Bio/DB/SeqFeature/Store/LoadHelper.pm
Please inform the author.
Checking prerequisites...
recommends:
* Bio::DB::BigFile is not installed
* Bio::DB::Sam is not installed
* Bio::Das is not installed
* Crypt::SSLeay is not installed
* DBD::mysql is not installed
* DB_File::Lock is not installed
* FCGI is not installed
* File::NFSLock is not installed
* GD::SVG is not installed
* Net::OpenID::Consumer is not installed
* Net::SMTP::SSL is not installed
* Parse::Apache::ServerStatus is not installed
* Template is not installed
* Do not worry if some "recommended" prerequisites are missing. You can install *
* them later if you need the features they provide. Do not proceed with the *
* install if any of "REQUIRED" prerequisites are missing. *
* *
* The optional Safe::World module does not currently run on Perl 5.10 or *
* higher, and so cannot be installed. *
ERRORS/WARNINGS FOUND IN PREREQUISITES. You may wish to install the versions
of the modules indicated above before proceeding with this installation
Run 'Build installdeps' to install missing prerequisites.
**** WARNING *****************************************************************************************
If you are upgrading from an earlier version of GBrowse and wish to use named user accounts, please
set "user_accounts" to 1 in /etc/gbrowse2/GBrowse.conf and run bin/gbrowse_metadb_config.pl to
create/update your user account database.
See /etc/gbrowse2/GBrowse.conf.new for suggested settings.
******************************************************************************************************
NOTE: Run ./Build reconfig to change existing configuration.
Now run:
./Build test
./Build demo (optional)
./Build install (as superuser/administrator)
-or-
./Build install_slave (optional, for slave installations)
Other useful targets:
./Build register (to register your copy of GBrowse)
./Build reconfig (to reconfigure install locations)
./Build demostop (to stop the demo)
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'GBrowse' version '2.56'
./Build --install_base=debian/gbrowse install_slave
NOTE: Run ./Build reconfig to change existing configuration.
Performing variable substitutions in blib/conf/aws_balancer.conf
Performing variable substitutions in blib/conf/detail_select_menu.conf
Performing variable substitutions in blib/conf/enzymes.txt
Performing variable substitutions in blib/conf/GBrowse.conf
Performing variable substitutions in blib/conf/log4perl.conf
Performing variable substitutions in blib/conf/MobyServices/moby.conf
Performing variable substitutions in blib/conf/pop_demo.conf
Performing variable substitutions in blib/conf/renderfarm.conf
Performing variable substitutions in blib/conf/slave_preload.conf
Performing variable substitutions in blib/conf/submitter_plugin.conf
Performing variable substitutions in blib/conf/synteny/oryza.synconf.disabled.conf
Performing variable substitutions in blib/conf/synteny/rice_synteny.conf
Performing variable substitutions in blib/conf/synteny/wild_rice_synteny.conf
Performing variable substitutions in blib/conf/themes/solid_gray_colors
Performing variable substitutions in blib/conf/themes/transparent_colors
Performing variable substitutions in blib/conf/themes/warm_colors
Performing variable substitutions in blib/conf/volvox.conf
Performing variable substitutions in blib/conf/yeast_chr1+2.conf
Performing variable substitutions in blib/conf/yeast_renderfarm.conf
Performing variable substitutions in blib/conf/yeast_simple.conf
Performing variable substitutions in blib/htdocs/annotation_help.html
Performing variable substitutions in blib/htdocs/cloud_index.html
Performing variable substitutions in blib/htdocs/example_scripts/index.html
Performing variable substitutions in blib/htdocs/example_scripts/README
Performing variable substitutions in blib/htdocs/gbrowse_karyotype_help.html
Performing variable substitutions in blib/htdocs/gbrowse_syn_help.html
Performing variable substitutions in blib/htdocs/general_help.html
Performing variable substitutions in blib/htdocs/index.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_core.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_extra.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final_withPhylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_halfway.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_Phylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_quarter.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_refactored.conf
Performing variable substitutions in blib/htdocs/tutorial/data_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.phyTreeEdit.html
Performing variable substitutions in blib/htdocs/vbox_index.html
Performing variable substitutions in blib/etc/default/gbrowse-aws-balancer
Use of uninitialized value $wwwuser in substitution (s///) at /build/reproducible-path/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 871, <GEN91> line 10.
Performing variable substitutions in blib/etc/default/gbrowse-slave
Performing variable substitutions in blib/etc/init.d/gbrowse-aws-balancer
Performing variable substitutions in blib/etc/init.d/gbrowse-slave
Use of uninitialized value $wwwuser in substitution (s///) at /build/reproducible-path/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 871, <GEN97> line 20.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/etc/init.d/gbrowse-slave
Installing debian/gbrowse/etc/init.d/gbrowse-aws-balancer
Installing debian/gbrowse/etc/default/gbrowse-slave
Installing debian/gbrowse/etc/default/gbrowse-aws-balancer
Installing debian/gbrowse/lib/perl5/i686-linux-gnu-thread-multi-64int/GBrowse/ConfigData.pm
mv debian/gbrowse/lib/perl5/* debian/gbrowse/usr/share/perl5
# Remove arch dependant data
mkdir -p debian/gbrowse-calign/usr/lib/i386-linux-gnu/perl5/5.40/auto/Bio/Graphics/Browser2/CAlign/
mkdir -p debian/gbrowse-calign/usr/lib/i386-linux-gnu/perl5/5.40/Bio/Graphics/Browser2/
mv debian/gbrowse/usr/share/perl5/auto/Bio/Graphics/Browser2/CAlign/* debian/gbrowse-calign/usr/lib/i386-linux-gnu/perl5/5.40/auto/Bio/Graphics/Browser2/CAlign/
mv debian/gbrowse/usr/share/perl5/Bio/Graphics/Browser2/CAlign.pm debian/gbrowse-calign/usr/lib/i386-linux-gnu/perl5/5.40/Bio/Graphics/Browser2/CAlign.pm
rm -rf debian/gbrowse/lib
rm -f debian/gbrowse/usr/share/doc/gbrowse/INSTALL
rm -f debian/gbrowse/usr/share/perl5/auto/GBrowse/.packlist
rm -f debian/gbrowse/usr/share/gbrowse/htdocs/js/prototype.js
rm -f debian/gbrowse/usr/share/gbrowse/htdocs/js/scriptaculous.js
chmod 644 debian/gbrowse/etc/gbrowse/MobyServices/text_xml_renderer.pm
chmod 644 debian/gbrowse/etc/gbrowse/synteny/oryza.synconf.disabled.conf
#Remove database (kept as separate package)
rm -rf debian/gbrowse/var/lib/gbrowse/databases/*
#Rename pl scripts in bin
file-rename 's/\.pl//' debian/gbrowse/bin/*.pl
mv debian/gbrowse/bin debian/gbrowse/usr/bin
# Activate configuration files.
find /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/etc -name '*.new' | xargs file-rename 's/.new//'
rm -rf /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/usr/share/perl5/auto
# Update conf files
sed -i 's/gbrowse2/gbrowse/g' /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/yeast*.conf
sed -i 's/gbrowse2/gbrowse/g' /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/slave*.conf
# move OpenID constumer secret to /etc/gbrowse to make it system admin configurable
mv /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/usr/share/perl5/GBrowse/ConfigData.pm /build/reproducible-path/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/ConfigData.pm
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_install
dh_apache2
dh_installdocs
dh_installchangelogs
debian/rules override_dh_installman
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
#Rename due to perl extension seen as polish
file-rename 's/\.pl\.1p/\.1p/' debian/gbrowse/man/man1/*.pl.1p
mkdir -p debian/gbrowse-calign/man/man3/
mv debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm debian/gbrowse-calign/man/man3/Bio::Graphics::Browser2::CAlign.3pm
dh_installman
rm -rf debian/gbrowse/man
rm -rf debian/gbrowse-calign/man
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_lintian
dh_perl
debian/rules override_dh_link
make[1]: Entering directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_link
# Fix broken link ... even if I habe no idea what a link to a not existing dir should serve for
ln -sf /var/cache/gbrowse/images debian/gbrowse/usr/share/gbrowse/htdocs/i
make[1]: Leaving directory '/build/reproducible-path/gbrowse-2.56+dfsg'
dh_strip_nondeterminism
dh_strip_nondeterminism: warning: Ignoring unwritable file: dna1.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: categorytable.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: trace1.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: config_editing.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: trace2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: setting_popup.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: dna2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: wiggle_density.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: menulink_active.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: menulink.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-left.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-down.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-up-on.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: pattern2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-right.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-left-on.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: pattern3.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-left-open.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-up-open.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: icon.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: pattern1.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-down-on.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-up.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-down-open.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-right-on.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: nav-arrow-right-open.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: overview+detail.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: upload.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: worm_exons_spec.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: multiple_hits.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: sugarcane_sorghum_synteny.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: remote.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: detail.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: yeast_I_genes_spec.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: landmark.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: upload_list.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: upload_field.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: detail_scale.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: navbar.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: worm_telomeric_spec.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: panleft.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: grey_0.4_pixel.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: pop_in.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: ex.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: ruler.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: ficon.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: dark_0.4_pixel.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: panright.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: ficon_2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: blue_peaks.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: plus.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: square.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: mminus.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: open_open.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: fmini_2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: snap_down.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: menu.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: panright2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: grey.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: snap_share.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: empty.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: minus12.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: panleft2.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: share.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: check.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: snap_ex.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: tools.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: snap_check.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: red_peaks.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: snap_mail.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: query.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: minus.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: pop_out.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: download.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: opacity_thumb.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: mplus.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: ruler-icon.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: trash.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: blogspot-logo.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: aim-logo.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: livejournal-logo.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: myopenid-logo.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: yahoo-logo.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: close.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: down_right.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: down_left.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: up_left.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: balloon.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: up_right.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: close.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: down_right.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: down_left.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: up_left.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: balloon.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: up_right.png
dh_strip_nondeterminism: warning: Ignoring unwritable file: balloon_ie.png
dh_compress
dh_fixperms
dh_missing
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 from: /lib/ld-linux.so.2
dpkg-shlibdeps: warning: diversions involved - output may be incorrect
diversion by libc6 to: /lib/ld-linux.so.2.usr-is-merged
dh_installdeb
dh_gencontrol
dh_md5sums
dh_builddeb
dpkg-deb: building package 'gbrowse-data' in '../gbrowse-data_2.56+dfsg-12_all.deb'.
dpkg-deb: building package 'gbrowse-calign-dbgsym' in '../gbrowse-calign-dbgsym_2.56+dfsg-12_i386.deb'.
dpkg-deb: building package 'gbrowse' in '../gbrowse_2.56+dfsg-12_all.deb'.
dpkg-deb: building package 'gbrowse-calign' in '../gbrowse-calign_2.56+dfsg-12_i386.deb'.
dpkg-genbuildinfo --build=binary -O../gbrowse_2.56+dfsg-12_i386.buildinfo
dpkg-genchanges --build=binary -O../gbrowse_2.56+dfsg-12_i386.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
dpkg-genchanges: info: not including original source code in upload
I: copying local configuration
I: unmounting dev/ptmx filesystem
I: unmounting dev/pts filesystem
I: unmounting dev/shm filesystem
I: unmounting proc filesystem
I: unmounting sys filesystem
I: cleaning the build env
I: removing directory /srv/workspace/pbuilder/64729 and its subdirectories
I: Current time: Fri Mar 7 08:36:54 -12 2025
I: pbuilder-time-stamp: 1741379814