gbrowse →
2.56+dfsg-12 →
armhf → 2024-01-19 12:12:58
sbuild (Debian sbuild) 0.85.0 (04 January 2023) on test2023
+==============================================================================+
| gbrowse 2.56+dfsg-12 (armhf) Fri, 19 Jan 2024 12:10:12 +0000 |
+==============================================================================+
Package: gbrowse
Version: 2.56+dfsg-12
Source Version: 2.56+dfsg-12
Distribution: trixie-staging
Machine Architecture: arm64
Host Architecture: armhf
Build Architecture: armhf
Build Type: any
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/trixie-staging-armhf-sbuild-caa79d06-8b33-4eaf-8ca5-7b5980f12c68' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/gbrowse-IXdDq7/resolver-QKOYFr' with '<<RESOLVERDIR>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.4.1/private trixie-staging InRelease [11.3 kB]
Get:2 http://172.17.4.1/private trixie-staging/main Sources [14.4 MB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf Packages [15.0 MB]
Fetched 29.4 MB in 5s (5422 kB/s)
Reading package lists...
W: http://172.17.4.1/private/dists/trixie-staging/InRelease: Key is stored in legacy trusted.gpg keyring (/etc/apt/trusted.gpg), see the DEPRECATION section in apt-key(8) for details.
+------------------------------------------------------------------------------+
| Fetch source files |
+------------------------------------------------------------------------------+
Check APT
---------
Checking available source versions...
Download source files with APT
------------------------------
Reading package lists...
NOTICE: 'gbrowse' packaging is maintained in the 'Git' version control system at:
https://salsa.debian.org/med-team/gbrowse.git
Please use:
git clone https://salsa.debian.org/med-team/gbrowse.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 4383 kB of source archives.
Get:1 http://172.17.4.1/private trixie-staging/main gbrowse 2.56+dfsg-12 (dsc) [2674 B]
Get:2 http://172.17.4.1/private trixie-staging/main gbrowse 2.56+dfsg-12 (tar) [4356 kB]
Get:3 http://172.17.4.1/private trixie-staging/main gbrowse 2.56+dfsg-12 (diff) [24.6 kB]
Fetched 4383 kB in 1s (7640 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/gbrowse-IXdDq7/gbrowse-2.56+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/gbrowse-IXdDq7' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-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, build-essential, fakeroot
Filtered Build-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, 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, build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [615 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [1072 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [1082 B]
Fetched 2769 B in 0s (0 B/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
apache2-bin apache2-dev autoconf automake autopoint autotools-dev bioperl
bsdextrautils bsdutils ca-certificates debhelper dh-autoreconf dh-exec
dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core
fonts-dejavu-mono gettext gettext-base groff-base intltool-debian
libabsl20220623 libalgorithm-diff-perl libanyevent-cachedns-perl
libanyevent-http-perl libanyevent-perl libaom3 libapache-dbi-perl
libapache2-mod-perl2 libapr1 libapr1-dev libaprutil1 libaprutil1-dbd-sqlite3
libaprutil1-dev libaprutil1-ldap libarchive-zip-perl libavif16
libbio-coordinate-perl libbio-db-biofetch-perl libbio-db-gff-perl
libbio-db-seqfeature-perl libbio-graphics-perl libbio-perl-perl libblkid1
libbrotli1 libbsd0 libcapture-tiny-perl libcgi-pm-perl libcgi-session-perl
libclass-data-inheritable-perl libclone-perl libcommon-sense-perl libcurl4
libdata-stag-perl libdav1d7 libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl
libde265-0 libdebhelper-perl libdeflate0 libdevel-stacktrace-perl
libdevel-symdump-perl libelf1 libencode-locale-perl libexception-class-perl
libexpat1 libexpat1-dev libexporter-tiny-perl libfile-listing-perl
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgav1-1
libgd-perl libgd3 libheif-plugin-dav1d libheif-plugin-libde265 libheif1
libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl
libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg62-turbo
libjs-prototype libjs-scriptaculous libjson-perl libldap-dev libldap2-dev
liblerc4 liblist-moreutils-perl liblist-moreutils-xs-perl liblua5.3-0
liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1
libmodule-build-perl libmount1 libnet-http-perl libnet-ssleay-perl
libnghttp2-14 libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3
libpipeline1 libpng16-16 libpq5 libpsl5 libpython3-stdlib
libpython3.11-minimal libpython3.11-stdlib librav1e0 librtmp1 libsctp-dev
libsctp1 libsharpyuv0 libsmartcols1 libssh2-1 libstatistics-descriptive-perl
libstring-approx-perl libsub-override-perl libsub-uplevel-perl
libsvtav1enc1d1 libterm-readkey-perl libtest-deep-perl
libtest-differences-perl libtest-exception-perl libtest-most-perl
libtest-warn-perl libtext-diff-perl libtiff6 libtimedate-perl libtool
libtry-tiny-perl libuchardet0 liburi-perl libuuid1 libvm-ec2-perl libwebp7
libwww-perl libwww-robotrules-perl libx11-6 libx11-data libxau6 libxcb1
libxdmcp6 libxml-libxml-perl libxml-namespacesupport-perl
libxml-sax-base-perl libxml-sax-perl libxml-simple-perl libxml2 libxpm4
libyuv0 m4 man-db media-types mount netbase openssl perl-openssl-defaults
po-debconf python3 python3-minimal python3.11 python3.11-minimal rename
sensible-utils sqlite3 ucf util-linux uuid-dev
Suggested packages:
apache2-doc apache2-suexec-pristine | apache2-suexec-custom www-browser
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev groff libev-perl libevent-perl
libio-async-perl libpoe-perl libtask-weaken-perl libxml-sax-expatxs-perl
libmldbm-perl libnet-daemon-perl libsql-statement-perl libgd-tools
libheif-plugin-ffmpegdec libheif-plugin-jpegdec libheif-plugin-jpegenc
libheif-plugin-j2kdec libheif-plugin-j2kenc libheif-plugin-rav1e
libheif-plugin-svtenc libdata-dump-perl libcrypt-ssleay-perl cryptsetup-bin
lksctp-tools libtool-doc gfortran | fortran95-compiler gcj-jdk
libsub-name-perl libbusiness-isbn-perl libregexp-ipv6-perl
libauthen-ntlm-perl m4-doc apparmor less nfs-common libmail-box-perl
python3-doc python3-tk python3-venv python3.11-venv python3.11-doc
binfmt-support sqlite3-doc dosfstools kbd util-linux-extra
util-linux-locales
Recommended packages:
bioperl-run perl-doc libcache-cache-perl libbio-perl-run-perl libyaml-perl
libace-perl libxml-twig-perl libset-scalar-perl curl | wget | lynx
libalgorithm-diff-xs-perl libasync-interrupt-perl libev-perl | libevent-perl
libguard-perl libapache2-reload-perl libbsd-resource-perl libbio-scf-perl
libberkeleydb-perl libgd-svg-perl bioperl-run | libbio-perl-run-perl
libalgorithm-munkres-perl libarray-compare-perl libbio-asn1-entrezgene-perl
libconvert-binary-c-perl libdbd-mysql-perl libgraph-perl libgraphviz-perl
libhtml-tableextract-perl libpostscript-perl libsoap-lite-perl
libsort-naturally-perl libspreadsheet-parseexcel-perl
libspreadsheet-writeexcel-perl libsvg-perl libsvg-graph-perl
libxml-dom-xpath-perl libxml-parser-perl libxml-sax-writer-perl
libxml-writer-perl libcgi-fast-perl libfreezethaw-perl perl-tk
libxml-libxslt-perl libmldbm-perl libxml-perl libarchive-cpio-perl
libheif-plugin-aomenc libheif-plugin-x265 libhtml-format-perl
libio-compress-brotli-perl javascript-common libjson-xs-perl
libmodule-signature-perl libpod-readme-perl libsoftware-license-perl
publicsuffix libltdl-dev uuid-runtime libdata-dump-perl libhtml-form-perl
libmailtools-perl libxml-sax-expat-perl libmail-sendmail-perl
The following NEW packages will be installed:
apache2-bin apache2-dev autoconf automake autopoint autotools-dev bioperl
bsdextrautils ca-certificates debhelper dh-autoreconf dh-exec
dh-strip-nondeterminism dwz file fontconfig-config fonts-dejavu-core
fonts-dejavu-mono gettext gettext-base groff-base intltool-debian
libabsl20220623 libalgorithm-diff-perl libanyevent-cachedns-perl
libanyevent-http-perl libanyevent-perl libaom3 libapache-dbi-perl
libapache2-mod-perl2 libapr1 libapr1-dev libaprutil1 libaprutil1-dbd-sqlite3
libaprutil1-dev libaprutil1-ldap libarchive-zip-perl libavif16
libbio-coordinate-perl libbio-db-biofetch-perl libbio-db-gff-perl
libbio-db-seqfeature-perl libbio-graphics-perl libbio-perl-perl libbrotli1
libbsd0 libcapture-tiny-perl libcgi-pm-perl libcgi-session-perl
libclass-data-inheritable-perl libclone-perl libcommon-sense-perl libcurl4
libdata-stag-perl libdav1d7 libdbd-pg-perl libdbd-sqlite3-perl libdbi-perl
libde265-0 libdebhelper-perl libdeflate0 libdevel-stacktrace-perl
libdevel-symdump-perl libelf1 libencode-locale-perl libexception-class-perl
libexpat1 libexpat1-dev libexporter-tiny-perl libfile-listing-perl
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgav1-1
libgd-perl libgd3 libheif-plugin-dav1d libheif-plugin-libde265 libheif1
libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu72 libio-html-perl
libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg62-turbo
libjs-prototype libjs-scriptaculous libjson-perl libldap-dev libldap2-dev
liblerc4 liblist-moreutils-perl liblist-moreutils-xs-perl liblua5.3-0
liblwp-mediatypes-perl liblwp-protocol-https-perl libmagic-mgc libmagic1
libmodule-build-perl libnet-http-perl libnet-ssleay-perl libnghttp2-14
libpcre2-16-0 libpcre2-32-0 libpcre2-dev libpcre2-posix3 libpipeline1
libpng16-16 libpq5 libpsl5 libpython3-stdlib libpython3.11-minimal
libpython3.11-stdlib librav1e0 librtmp1 libsctp-dev libsctp1 libsharpyuv0
libssh2-1 libstatistics-descriptive-perl libstring-approx-perl
libsub-override-perl libsub-uplevel-perl libsvtav1enc1d1
libterm-readkey-perl libtest-deep-perl libtest-differences-perl
libtest-exception-perl libtest-most-perl libtest-warn-perl libtext-diff-perl
libtiff6 libtimedate-perl libtool libtry-tiny-perl libuchardet0 liburi-perl
libvm-ec2-perl libwebp7 libwww-perl libwww-robotrules-perl libx11-6
libx11-data libxau6 libxcb1 libxdmcp6 libxml-libxml-perl
libxml-namespacesupport-perl libxml-sax-base-perl libxml-sax-perl
libxml-simple-perl libxml2 libxpm4 libyuv0 m4 man-db media-types netbase
openssl perl-openssl-defaults po-debconf python3 python3-minimal python3.11
python3.11-minimal rename sbuild-build-depends-main-dummy sensible-utils
sqlite3 ucf uuid-dev
The following packages will be upgraded:
bsdutils libblkid1 libmount1 libsmartcols1 libuuid1 mount util-linux
7 upgraded, 179 newly installed, 0 to remove and 38 not upgraded.
Need to get 53.2 MB of archives.
After this operation, 184 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [1060 B]
Get:2 http://172.17.4.1/private trixie-staging/main armhf bsdutils armhf 1:2.39.3-6 [87.1 kB]
Get:3 http://172.17.4.1/private trixie-staging/main armhf util-linux armhf 2.39.3-6 [1113 kB]
Get:4 http://172.17.4.1/private trixie-staging/main armhf mount armhf 2.39.3-6 [134 kB]
Get:5 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-minimal armhf 3.11.7-2 [801 kB]
Get:6 http://172.17.4.1/private trixie-staging/main armhf libexpat1 armhf 2.5.0-2 [76.8 kB]
Get:7 http://172.17.4.1/private trixie-staging/main armhf python3.11-minimal armhf 3.11.7-2 [1677 kB]
Get:8 http://172.17.4.1/private trixie-staging/main armhf python3-minimal armhf 3.11.4-5 [26.2 kB]
Get:9 http://172.17.4.1/private trixie-staging/main armhf media-types all 10.1.0 [26.9 kB]
Get:10 http://172.17.4.1/private trixie-staging/main armhf netbase all 6.4 [12.8 kB]
Get:11 http://172.17.4.1/private trixie-staging/main armhf libuuid1 armhf 2.39.3-6 [28.3 kB]
Get:12 http://172.17.4.1/private trixie-staging/main armhf libpython3.11-stdlib armhf 3.11.7-2 [1694 kB]
Get:13 http://172.17.4.1/private trixie-staging/main armhf python3.11 armhf 3.11.7-2 [590 kB]
Get:14 http://172.17.4.1/private trixie-staging/main armhf libpython3-stdlib armhf 3.11.4-5 [9200 B]
Get:15 http://172.17.4.1/private trixie-staging/main armhf python3 armhf 3.11.4-5 [26.2 kB]
Get:16 http://172.17.4.1/private trixie-staging/main armhf libblkid1 armhf 2.39.3-6 [145 kB]
Get:17 http://172.17.4.1/private trixie-staging/main armhf libmount1 armhf 2.39.3-6 [168 kB]
Get:18 http://172.17.4.1/private trixie-staging/main armhf libsmartcols1 armhf 2.39.3-6 [102 kB]
Get:19 http://172.17.4.1/private trixie-staging/main armhf libuchardet0 armhf 0.0.8-1 [65.5 kB]
Get:20 http://172.17.4.1/private trixie-staging/main armhf groff-base armhf 1.23.0-3 [1033 kB]
Get:21 http://172.17.4.1/private trixie-staging/main armhf bsdextrautils armhf 2.39.3-6 [81.4 kB]
Get:22 http://172.17.4.1/private trixie-staging/main armhf libpipeline1 armhf 1.5.7-1 [33.4 kB]
Get:23 http://172.17.4.1/private trixie-staging/main armhf man-db armhf 2.12.0-3 [1358 kB]
Get:24 http://172.17.4.1/private trixie-staging/main armhf sensible-utils all 0.0.20 [19.3 kB]
Get:25 http://172.17.4.1/private trixie-staging/main armhf openssl armhf 3.1.4-2 [1375 kB]
Get:26 http://172.17.4.1/private trixie-staging/main armhf ca-certificates all 20230311 [153 kB]
Get:27 http://172.17.4.1/private trixie-staging/main armhf libmagic-mgc armhf 1:5.45-2 [314 kB]
Get:28 http://172.17.4.1/private trixie-staging/main armhf libmagic1 armhf 1:5.45-2 [96.1 kB]
Get:29 http://172.17.4.1/private trixie-staging/main armhf file armhf 1:5.45-2 [41.6 kB]
Get:30 http://172.17.4.1/private trixie-staging/main armhf gettext-base armhf 0.21-14 [157 kB]
Get:31 http://172.17.4.1/private trixie-staging/main armhf ucf all 3.0043+nmu1 [55.2 kB]
Get:32 http://172.17.4.1/private trixie-staging/main armhf libapr1 armhf 1.7.2-3 [82.4 kB]
Get:33 http://172.17.4.1/private trixie-staging/main armhf libaprutil1 armhf 1.6.3-1 [75.2 kB]
Get:34 http://172.17.4.1/private trixie-staging/main armhf libaprutil1-dbd-sqlite3 armhf 1.6.3-1 [12.3 kB]
Get:35 http://172.17.4.1/private trixie-staging/main armhf libaprutil1-ldap armhf 1.6.3-1 [11.3 kB]
Get:36 http://172.17.4.1/private trixie-staging/main armhf libbrotli1 armhf 1.1.0-2 [280 kB]
Get:37 http://172.17.4.1/private trixie-staging/main armhf libnghttp2-14 armhf 1.58.0-1 [61.7 kB]
Get:38 http://172.17.4.1/private trixie-staging/main armhf libpsl5 armhf 0.21.2-1+b1 [57.8 kB]
Get:39 http://172.17.4.1/private trixie-staging/main armhf librtmp1 armhf 2.4+20151223.gitfa8646d.1-2+b2 [54.2 kB]
Get:40 http://172.17.4.1/private trixie-staging/main armhf libssh2-1 armhf 1.11.0-4 [195 kB]
Get:41 http://172.17.4.1/private trixie-staging/main armhf libcurl4 armhf 8.5.0-2+rpi1 [377 kB]
Get:42 http://172.17.4.1/private trixie-staging/main armhf liblua5.3-0 armhf 5.3.6-2 [98.3 kB]
Get:43 http://172.17.4.1/private trixie-staging/main armhf libicu72 armhf 72.1-4 [9009 kB]
Get:44 http://172.17.4.1/private trixie-staging/main armhf libxml2 armhf 2.9.14+dfsg-1.3 [571 kB]
Get:45 http://172.17.4.1/private trixie-staging/main armhf apache2-bin armhf 2.4.58-1 [1171 kB]
Get:46 http://172.17.4.1/private trixie-staging/main armhf autotools-dev all 20220109.1 [51.6 kB]
Get:47 http://172.17.4.1/private trixie-staging/main armhf m4 armhf 1.4.19-4 [256 kB]
Get:48 http://172.17.4.1/private trixie-staging/main armhf autoconf all 2.71-3 [332 kB]
Get:49 http://172.17.4.1/private trixie-staging/main armhf automake all 1:1.16.5-1.3 [823 kB]
Get:50 http://172.17.4.1/private trixie-staging/main armhf autopoint all 0.21-14 [496 kB]
Get:51 http://172.17.4.1/private trixie-staging/main armhf libdebhelper-perl all 13.11.9 [82.3 kB]
Get:52 http://172.17.4.1/private trixie-staging/main armhf libtool all 2.4.7-7 [517 kB]
Get:53 http://172.17.4.1/private trixie-staging/main armhf dh-autoreconf all 20 [17.1 kB]
Get:54 http://172.17.4.1/private trixie-staging/main armhf libarchive-zip-perl all 1.68-1 [104 kB]
Get:55 http://172.17.4.1/private trixie-staging/main armhf libsub-override-perl all 0.10-1 [10.6 kB]
Get:56 http://172.17.4.1/private trixie-staging/main armhf libfile-stripnondeterminism-perl all 1.13.1-1 [19.4 kB]
Get:57 http://172.17.4.1/private trixie-staging/main armhf dh-strip-nondeterminism all 1.13.1-1 [8620 B]
Get:58 http://172.17.4.1/private trixie-staging/main armhf libelf1 armhf 0.188-2.1+rpi1 [171 kB]
Get:59 http://172.17.4.1/private trixie-staging/main armhf dwz armhf 0.15-1 [92.4 kB]
Get:60 http://172.17.4.1/private trixie-staging/main armhf gettext armhf 0.21-14 [1203 kB]
Get:61 http://172.17.4.1/private trixie-staging/main armhf intltool-debian all 0.35.0+20060710.6 [22.9 kB]
Get:62 http://172.17.4.1/private trixie-staging/main armhf po-debconf all 1.0.21+nmu1 [248 kB]
Get:63 http://172.17.4.1/private trixie-staging/main armhf debhelper all 13.11.9 [956 kB]
Get:64 http://172.17.4.1/private trixie-staging/main armhf uuid-dev armhf 2.39.3-6 [39.0 kB]
Get:65 http://172.17.4.1/private trixie-staging/main armhf libsctp1 armhf 1.0.19+dfsg-2 [29.1 kB]
Get:66 http://172.17.4.1/private trixie-staging/main armhf libsctp-dev armhf 1.0.19+dfsg-2 [71.5 kB]
Get:67 http://172.17.4.1/private trixie-staging/main armhf libapr1-dev armhf 1.7.2-3 [732 kB]
Get:68 http://172.17.4.1/private trixie-staging/main armhf libldap-dev armhf 2.5.13+dfsg-5+rpi1 [259 kB]
Get:69 http://172.17.4.1/private trixie-staging/main armhf libldap2-dev all 2.5.13+dfsg-5+rpi1 [22.7 kB]
Get:70 http://172.17.4.1/private trixie-staging/main armhf libexpat1-dev armhf 2.5.0-2 [130 kB]
Get:71 http://172.17.4.1/private trixie-staging/main armhf libaprutil1-dev armhf 1.6.3-1 [397 kB]
Get:72 http://172.17.4.1/private trixie-staging/main armhf libpcre2-16-0 armhf 10.42-4 [211 kB]
Get:73 http://172.17.4.1/private trixie-staging/main armhf libpcre2-32-0 armhf 10.42-4 [201 kB]
Get:74 http://172.17.4.1/private trixie-staging/main armhf libpcre2-posix3 armhf 10.42-4 [55.1 kB]
Get:75 http://172.17.4.1/private trixie-staging/main armhf libpcre2-dev armhf 10.42-4 [648 kB]
Get:76 http://172.17.4.1/private trixie-staging/main armhf apache2-dev armhf 2.4.58-1 [310 kB]
Get:77 http://172.17.4.1/private trixie-staging/main armhf libio-string-perl all 1.08-4 [12.1 kB]
Get:78 http://172.17.4.1/private trixie-staging/main armhf libdata-stag-perl all 0.14-3 [448 kB]
Get:79 http://172.17.4.1/private trixie-staging/main armhf libbio-perl-perl all 1.7.8-1 [2603 kB]
Get:80 http://172.17.4.1/private trixie-staging/main armhf libclass-data-inheritable-perl all 0.08-3 [8588 B]
Get:81 http://172.17.4.1/private trixie-staging/main armhf libdevel-stacktrace-perl all 2.0400-2 [26.8 kB]
Get:82 http://172.17.4.1/private trixie-staging/main armhf libexception-class-perl all 1.45-1 [34.6 kB]
Get:83 http://172.17.4.1/private trixie-staging/main armhf libtest-deep-perl all 1.204-1 [52.9 kB]
Get:84 http://172.17.4.1/private trixie-staging/main armhf libcapture-tiny-perl all 0.48-2 [24.6 kB]
Get:85 http://172.17.4.1/private trixie-staging/main armhf libalgorithm-diff-perl all 1.201-1 [43.3 kB]
Get:86 http://172.17.4.1/private trixie-staging/main armhf libtext-diff-perl all 1.45-2 [27.2 kB]
Get:87 http://172.17.4.1/private trixie-staging/main armhf libtest-differences-perl all 0.71-1 [17.9 kB]
Get:88 http://172.17.4.1/private trixie-staging/main armhf libsub-uplevel-perl all 0.2800-3 [14.0 kB]
Get:89 http://172.17.4.1/private trixie-staging/main armhf libtest-exception-perl all 0.43-3 [16.9 kB]
Get:90 http://172.17.4.1/private trixie-staging/main armhf libtest-warn-perl all 0.37-2 [14.5 kB]
Get:91 http://172.17.4.1/private trixie-staging/main armhf libtest-most-perl all 0.38-1 [25.1 kB]
Get:92 http://172.17.4.1/private trixie-staging/main armhf bioperl all 1.7.8-1 [246 kB]
Get:93 http://172.17.4.1/private trixie-staging/main armhf dh-exec armhf 0.28 [23.5 kB]
Get:94 http://172.17.4.1/private trixie-staging/main armhf fonts-dejavu-mono all 2.37-8 [489 kB]
Get:95 http://172.17.4.1/private trixie-staging/main armhf fonts-dejavu-core all 2.37-8 [840 kB]
Get:96 http://172.17.4.1/private trixie-staging/main armhf fontconfig-config armhf 2.14.2-6 [316 kB]
Get:97 http://172.17.4.1/private trixie-staging/main armhf libabsl20220623 armhf 20220623.1-3 [356 kB]
Get:98 http://172.17.4.1/private trixie-staging/main armhf libanyevent-perl armhf 7.170-2+b3 [394 kB]
Get:99 http://172.17.4.1/private trixie-staging/main armhf libanyevent-cachedns-perl all 0.08-3 [7708 B]
Get:100 http://172.17.4.1/private trixie-staging/main armhf libcommon-sense-perl armhf 3.75-3 [23.0 kB]
Get:101 http://172.17.4.1/private trixie-staging/main armhf libanyevent-http-perl all 2.25-2 [35.2 kB]
Get:102 http://172.17.4.1/private trixie-staging/main armhf libaom3 armhf 3.7.1-1 [1393 kB]
Get:103 http://172.17.4.1/private trixie-staging/main armhf libdevel-symdump-perl all 2.18-5 [15.8 kB]
Get:104 http://172.17.4.1/private trixie-staging/main armhf liburi-perl all 5.21-1 [95.6 kB]
Get:105 http://172.17.4.1/private trixie-staging/main armhf libencode-locale-perl all 1.05-3 [12.9 kB]
Get:106 http://172.17.4.1/private trixie-staging/main armhf libtimedate-perl all 2.3300-2 [39.3 kB]
Get:107 http://172.17.4.1/private trixie-staging/main armhf libhttp-date-perl all 6.06-1 [10.7 kB]
Get:108 http://172.17.4.1/private trixie-staging/main armhf libfile-listing-perl all 6.16-1 [12.4 kB]
Get:109 http://172.17.4.1/private trixie-staging/main armhf libhtml-tagset-perl all 3.20-6 [11.7 kB]
Get:110 http://172.17.4.1/private trixie-staging/main armhf libhtml-parser-perl armhf 3.81-1 [97.2 kB]
Get:111 http://172.17.4.1/private trixie-staging/main armhf libhtml-tree-perl all 5.07-3 [211 kB]
Get:112 http://172.17.4.1/private trixie-staging/main armhf libclone-perl armhf 0.46-1 [13.2 kB]
Get:113 http://172.17.4.1/private trixie-staging/main armhf libio-html-perl all 1.004-3 [16.2 kB]
Get:114 http://172.17.4.1/private trixie-staging/main armhf liblwp-mediatypes-perl all 6.04-2 [20.2 kB]
Get:115 http://172.17.4.1/private trixie-staging/main armhf libhttp-message-perl all 6.45-1 [82.0 kB]
Get:116 http://172.17.4.1/private trixie-staging/main armhf libhttp-cookies-perl all 6.11-1 [19.1 kB]
Get:117 http://172.17.4.1/private trixie-staging/main armhf libhttp-negotiate-perl all 6.01-2 [13.1 kB]
Get:118 http://172.17.4.1/private trixie-staging/main armhf perl-openssl-defaults armhf 7+b1 [7916 B]
Get:119 http://172.17.4.1/private trixie-staging/main armhf libnet-ssleay-perl armhf 1.92-2+b2 [297 kB]
Get:120 http://172.17.4.1/private trixie-staging/main armhf libio-socket-ssl-perl all 2.084-1 [216 kB]
Get:121 http://172.17.4.1/private trixie-staging/main armhf libnet-http-perl all 6.23-1 [23.9 kB]
Get:122 http://172.17.4.1/private trixie-staging/main armhf liblwp-protocol-https-perl all 6.11-1 [10.5 kB]
Get:123 http://172.17.4.1/private trixie-staging/main armhf libtry-tiny-perl all 0.31-2 [22.6 kB]
Get:124 http://172.17.4.1/private trixie-staging/main armhf libwww-robotrules-perl all 6.02-1 [12.9 kB]
Get:125 http://172.17.4.1/private trixie-staging/main armhf libwww-perl all 6.72-1 [187 kB]
Get:126 http://172.17.4.1/private trixie-staging/main armhf libapache2-mod-perl2 armhf 2.0.13-1 [848 kB]
Get:127 http://172.17.4.1/private trixie-staging/main armhf libdbi-perl armhf 1.643-4 [763 kB]
Get:128 http://172.17.4.1/private trixie-staging/main armhf libapache-dbi-perl all 1.12-3 [48.5 kB]
Get:129 http://172.17.4.1/private trixie-staging/main armhf libdav1d7 armhf 1.3.0-2+rpi1 [214 kB]
Get:130 http://172.17.4.1/private trixie-staging/main armhf libgav1-1 armhf 0.18.0-1+rpi1+b1 [285 kB]
Get:131 http://172.17.4.1/private trixie-staging/main armhf librav1e0 armhf 0.6.6-3+rpi1 [548 kB]
Get:132 http://172.17.4.1/private trixie-staging/main armhf libsharpyuv0 armhf 1.3.2-0.3 [106 kB]
Get:133 http://172.17.4.1/private trixie-staging/main armhf libsvtav1enc1d1 armhf 1.7.0+dfsg-2 [884 kB]
Get:134 http://172.17.4.1/private trixie-staging/main armhf libjpeg62-turbo armhf 1:2.1.5-2 [143 kB]
Get:135 http://172.17.4.1/private trixie-staging/main armhf libyuv0 armhf 0.0~git20231118.e6d5adb-1 [82.8 kB]
Get:136 http://172.17.4.1/private trixie-staging/main armhf libavif16 armhf 1.0.3-1 [93.7 kB]
Get:137 http://172.17.4.1/private trixie-staging/main armhf libbio-coordinate-perl all 1.7.1-4 [56.7 kB]
Get:138 http://172.17.4.1/private trixie-staging/main armhf libbio-db-biofetch-perl all 1.7.3-4 [17.5 kB]
Get:139 http://172.17.4.1/private trixie-staging/main armhf libcgi-pm-perl all 4.60-1 [219 kB]
Get:140 http://172.17.4.1/private trixie-staging/main armhf libbio-db-gff-perl all 1.7.4-1 [273 kB]
Get:141 http://172.17.4.1/private trixie-staging/main armhf libpq5 armhf 16.1-1+rpi1 [198 kB]
Get:142 http://172.17.4.1/private trixie-staging/main armhf libdbd-pg-perl armhf 3.18.0-1 [203 kB]
Get:143 http://172.17.4.1/private trixie-staging/main armhf libdbd-sqlite3-perl armhf 1.74-1 [171 kB]
Get:144 http://172.17.4.1/private trixie-staging/main armhf libbio-db-seqfeature-perl all 1.7.4-2 [169 kB]
Get:145 http://172.17.4.1/private trixie-staging/main armhf libpng16-16 armhf 1.6.40-3 [259 kB]
Get:146 http://172.17.4.1/private trixie-staging/main armhf libfreetype6 armhf 2.13.2+dfsg-1 [366 kB]
Get:147 http://172.17.4.1/private trixie-staging/main armhf libfontconfig1 armhf 2.14.2-6 [367 kB]
Get:148 http://172.17.4.1/private trixie-staging/main armhf libheif-plugin-dav1d armhf 1.17.6-1 [9300 B]
Get:149 http://172.17.4.1/private trixie-staging/main armhf libde265-0 armhf 1.0.15-1+rpi1 [140 kB]
Get:150 http://172.17.4.1/private trixie-staging/main armhf libheif-plugin-libde265 armhf 1.17.6-1 [12.2 kB]
Get:151 http://172.17.4.1/private trixie-staging/main armhf libheif1 armhf 1.17.6-1 [237 kB]
Get:152 http://172.17.4.1/private trixie-staging/main armhf libdeflate0 armhf 1.18-1 [38.3 kB]
Get:153 http://172.17.4.1/private trixie-staging/main armhf libjbig0 armhf 2.1-6.1 [27.0 kB]
Get:154 http://172.17.4.1/private trixie-staging/main armhf liblerc4 armhf 4.0.0+ds-4 [132 kB]
Get:155 http://172.17.4.1/private trixie-staging/main armhf libwebp7 armhf 1.3.2-0.3 [261 kB]
Get:156 http://172.17.4.1/private trixie-staging/main armhf libtiff6 armhf 4.5.1+git230720-3 [299 kB]
Get:157 http://172.17.4.1/private trixie-staging/main armhf libxau6 armhf 1:1.0.9-1 [19.1 kB]
Get:158 http://172.17.4.1/private trixie-staging/main armhf libbsd0 armhf 0.11.8-1 [120 kB]
Get:159 http://172.17.4.1/private trixie-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:160 http://172.17.4.1/private trixie-staging/main armhf libxcb1 armhf 1.15-1 [139 kB]
Get:161 http://172.17.4.1/private trixie-staging/main armhf libx11-data all 2:1.8.7-1 [328 kB]
Get:162 http://172.17.4.1/private trixie-staging/main armhf libx11-6 armhf 2:1.8.7-1 [729 kB]
Get:163 http://172.17.4.1/private trixie-staging/main armhf libxpm4 armhf 1:3.5.17-1 [49.3 kB]
Get:164 http://172.17.4.1/private trixie-staging/main armhf libgd3 armhf 2.3.3-9+b1 [102 kB]
Get:165 http://172.17.4.1/private trixie-staging/main armhf libgd-perl armhf 2.78-1 [128 kB]
Get:166 http://172.17.4.1/private trixie-staging/main armhf libbio-graphics-perl all 2.40-6 [610 kB]
Get:167 http://172.17.4.1/private trixie-staging/main armhf libcgi-session-perl all 4.48-4 [118 kB]
Get:168 http://172.17.4.1/private trixie-staging/main armhf libexporter-tiny-perl all 1.006002-1 [38.7 kB]
Get:169 http://172.17.4.1/private trixie-staging/main armhf libhttp-daemon-perl all 6.16-1 [23.5 kB]
Get:170 http://172.17.4.1/private trixie-staging/main armhf libjs-prototype all 1.7.3-1 [44.3 kB]
Get:171 http://172.17.4.1/private trixie-staging/main armhf libjs-scriptaculous all 1.9.0-3 [110 kB]
Get:172 http://172.17.4.1/private trixie-staging/main armhf libjson-perl all 4.10000-1 [87.5 kB]
Get:173 http://172.17.4.1/private trixie-staging/main armhf liblist-moreutils-xs-perl armhf 0.430-3+b1 [35.1 kB]
Get:174 http://172.17.4.1/private trixie-staging/main armhf liblist-moreutils-perl all 0.430-2 [46.9 kB]
Get:175 http://172.17.4.1/private trixie-staging/main armhf libmodule-build-perl all 0.423400-2 [252 kB]
Get:176 http://172.17.4.1/private trixie-staging/main armhf libstatistics-descriptive-perl all 3.0801-1 [62.8 kB]
Get:177 http://172.17.4.1/private trixie-staging/main armhf libstring-approx-perl armhf 3.28-2+b1 [36.9 kB]
Get:178 http://172.17.4.1/private trixie-staging/main armhf libterm-readkey-perl armhf 2.38-2+b1 [23.4 kB]
Get:179 http://172.17.4.1/private trixie-staging/main armhf libxml-namespacesupport-perl all 1.12-2 [15.1 kB]
Get:180 http://172.17.4.1/private trixie-staging/main armhf libxml-sax-base-perl all 1.09-3 [20.6 kB]
Get:181 http://172.17.4.1/private trixie-staging/main armhf libxml-sax-perl all 1.02+dfsg-3 [59.4 kB]
Get:182 http://172.17.4.1/private trixie-staging/main armhf libxml-libxml-perl armhf 2.0207+dfsg+really+2.0134-1+b2 [305 kB]
Get:183 http://172.17.4.1/private trixie-staging/main armhf libxml-simple-perl all 2.25-2 [69.8 kB]
Get:184 http://172.17.4.1/private trixie-staging/main armhf libvm-ec2-perl all 1.28-4 [760 kB]
Get:185 http://172.17.4.1/private trixie-staging/main armhf rename all 2.02-1 [21.8 kB]
Get:186 http://172.17.4.1/private trixie-staging/main armhf sqlite3 armhf 3.44.2-1 [349 kB]
debconf: delaying package configuration, since apt-utils is not installed
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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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Setting up media-types (10.1.0) ...
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Setting up libstring-approx-perl (3.28-2+b1) ...
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Setting up libclone-perl:armhf (0.46-1) ...
Setting up libalgorithm-diff-perl (1.201-1) ...
Setting up libarchive-zip-perl (1.68-1) ...
Setting up libhtml-tagset-perl (3.20-6) ...
Setting up libdebhelper-perl (13.11.9) ...
Setting up libbrotli1:armhf (1.1.0-2) ...
Setting up liblwp-mediatypes-perl (6.04-2) ...
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Setting up libnghttp2-14:armhf (1.58.0-1) ...
Setting up libmagic1:armhf (1:5.45-2) ...
Setting up libpq5:armhf (16.1-1+rpi1) ...
Setting up libdeflate0:armhf (1.18-1) ...
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Setting up perl-openssl-defaults:armhf (7+b1) ...
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Setting up m4 (1.4.19-4) ...
Setting up libencode-locale-perl (1.05-3) ...
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update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode
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Setting up mount (2.39.3-6) ...
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Setting up automake (1:1.16.5-1.3) ...
update-alternatives: using /usr/bin/automake-1.16 to provide /usr/bin/automake (automake) in auto mode
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Setting up libavif16:armhf (1.0.3-1) ...
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Setting up gettext (0.21-14) ...
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Setting up libpcre2-dev:armhf (10.42-4) ...
Setting up libtool (2.4.7-7) ...
Setting up fontconfig-config (2.14.2-6) ...
Setting up libjs-scriptaculous (1.9.0-3) ...
Setting up liblist-moreutils-perl (0.430-2) ...
Setting up libtest-warn-perl (0.37-2) ...
Setting up libpython3.11-stdlib:armhf (3.11.7-2) ...
Setting up libtest-differences-perl (0.71-1) ...
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Setting up intltool-debian (0.35.0+20060710.6) ...
Setting up libldap2-dev (2.5.13+dfsg-5+rpi1) ...
Setting up dh-autoreconf (20) ...
Setting up ca-certificates (20230311) ...
Updating certificates in /etc/ssl/certs...
140 added, 0 removed; done.
Setting up libtest-exception-perl (0.43-3) ...
Setting up libfreetype6:armhf (2.13.2+dfsg-1) ...
Setting up libsctp-dev:armhf (1.0.19+dfsg-2) ...
Setting up ucf (3.0043+nmu1) ...
Setting up dh-strip-nondeterminism (1.13.1-1) ...
Setting up libwww-robotrules-perl (6.02-1) ...
Setting up dwz (0.15-1) ...
Setting up groff-base (1.23.0-3) ...
Setting up libhtml-parser-perl:armhf (3.81-1) ...
Setting up libcurl4:armhf (8.5.0-2+rpi1) ...
Setting up libx11-6:armhf (2:1.8.7-1) ...
Setting up libdbd-sqlite3-perl:armhf (1.74-1) ...
Setting up libfontconfig1:armhf (2.14.2-6) ...
Setting up libio-socket-ssl-perl (2.084-1) ...
Setting up libpython3-stdlib:armhf (3.11.4-5) ...
Setting up libhttp-message-perl (6.45-1) ...
Setting up python3.11 (3.11.7-2) ...
Setting up libhttp-negotiate-perl (6.01-2) ...
Setting up libstatistics-descriptive-perl (3.0801-1) ...
Setting up libxpm4:armhf (1:3.5.17-1) ...
Setting up libhttp-cookies-perl (6.11-1) ...
Setting up libtest-most-perl (0.38-1) ...
Setting up po-debconf (1.0.21+nmu1) ...
Setting up libhtml-tree-perl (5.07-3) ...
Setting up libcgi-pm-perl (4.60-1) ...
Setting up python3 (3.11.4-5) ...
Setting up apache2-bin (2.4.58-1) ...
Setting up man-db (2.12.0-3) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libxml-sax-perl (1.02+dfsg-3) ...
update-perl-sax-parsers: Registering Perl SAX parser XML::SAX::PurePerl with priority 10...
update-perl-sax-parsers: Updating overall Perl SAX parser modules info file...
Creating config file /etc/perl/XML/SAX/ParserDetails.ini with new version
Setting up libcgi-session-perl (4.48-4) ...
Setting up libapr1-dev (1.7.2-3) ...
Setting up libxml-libxml-perl (2.0207+dfsg+really+2.0134-1+b2) ...
update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX::Parser with priority 50...
update-perl-sax-parsers: Registering Perl SAX parser XML::LibXML::SAX with priority 50...
update-perl-sax-parsers: Updating overall Perl SAX parser modules info file...
Replacing config file /etc/perl/XML/SAX/ParserDetails.ini with new version
Setting up libhttp-daemon-perl (6.16-1) ...
Setting up libaprutil1-dev (1.6.3-1) ...
Setting up bioperl (1.7.8-1) ...
Setting up debhelper (13.11.9) ...
Setting up dh-exec (0.28) ...
Setting up libbio-coordinate-perl (1.7.1-4) ...
Setting up libxml-simple-perl (2.25-2) ...
Setting up apache2-dev (2.4.58-1) ...
Setting up libwww-perl (6.72-1) ...
Setting up libapache2-mod-perl2 (2.0.13-1) ...
Setting up libbio-db-biofetch-perl (1.7.3-4) ...
Setting up libheif-plugin-dav1d:armhf (1.17.6-1) ...
Setting up liblwp-protocol-https-perl (6.11-1) ...
Setting up libheif-plugin-libde265:armhf (1.17.6-1) ...
Setting up libvm-ec2-perl (1.28-4) ...
Setting up libheif1:armhf (1.17.6-1) ...
Setting up libapache-dbi-perl (1.12-3) ...
Setting up libgd3:armhf (2.3.3-9+b1) ...
Setting up libbio-db-gff-perl (1.7.4-1) ...
Setting up libbio-db-seqfeature-perl (1.7.4-2) ...
Setting up libgd-perl (2.78-1) ...
Setting up libbio-graphics-perl (2.40-6) ...
Setting up sbuild-build-depends-main-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.37-12+rpi2) ...
Processing triggers for ca-certificates (20230311) ...
Updating certificates in /etc/ssl/certs...
0 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 6.1.47-v8+ #1 SMP PREEMPT Fri Sep 1 07:05:33 BST 2023 arm64 (aarch64)
Toolchain package versions: binutils_2.41-6+rpi1 dpkg-dev_1.22.1+rpi1 g++-12_12.3.0-13+rpi1 g++-13_13.2.0-7+rpi1 gcc-12_12.3.0-13+rpi1 gcc-13_13.2.0-7+rpi1 libc6-dev_2.37-12+rpi2 libstdc++-12-dev_12.3.0-13+rpi1 libstdc++-13-dev_13.2.0-7+rpi1 libstdc++6_13.2.0-7+rpi1 linux-libc-dev_6.5.6-1+rpi1
Package versions: adduser_3.137 apache2-bin_2.4.58-1 apache2-dev_2.4.58-1 apt_2.7.6 autoconf_2.71-3 automake_1:1.16.5-1.3 autopoint_0.21-14 autotools-dev_20220109.1 base-files_13+rpi1 base-passwd_3.6.3 bash_5.2.21-2 binutils_2.41-6+rpi1 binutils-arm-linux-gnueabihf_2.41-6+rpi1 binutils-common_2.41-6+rpi1 bioperl_1.7.8-1 bsdextrautils_2.39.3-6 bsdutils_1:2.39.3-6 build-essential_12.10 bzip2_1.0.8-5+b2 ca-certificates_20230311 coreutils_9.1-1 cpp_4:13.2.0-1+rpi1 cpp-12_12.3.0-13+rpi1 cpp-13_13.2.0-7+rpi1 dash_0.5.12-6 debconf_1.5.82 debhelper_13.11.9 debianutils_5.14 dh-autoreconf_20 dh-exec_0.28 dh-strip-nondeterminism_1.13.1-1 diffutils_1:3.10-1 dirmngr_2.2.40-1.1 dpkg_1.22.1+rpi1 dpkg-dev_1.22.1+rpi1 dwz_0.15-1 e2fsprogs_1.47.0-2 fakeroot_1.32.2-1 file_1:5.45-2 findutils_4.9.0-5 fontconfig-config_2.14.2-6 fonts-dejavu-core_2.37-8 fonts-dejavu-mono_2.37-8 g++_4:13.2.0-1+rpi1 g++-12_12.3.0-13+rpi1 g++-13_13.2.0-7+rpi1 gcc_4:13.2.0-1+rpi1 gcc-10-base_10.4.0-7+rpi1 gcc-12_12.3.0-13+rpi1 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libhttp-cookies-perl_6.11-1 libhttp-daemon-perl_6.16-1 libhttp-date-perl_6.06-1 libhttp-message-perl_6.45-1 libhttp-negotiate-perl_6.01-2 libicu72_72.1-4 libidn2-0_2.3.4-1 libio-html-perl_1.004-3 libio-socket-ssl-perl_2.084-1 libio-string-perl_1.08-4 libisl23_0.26-3 libjansson4_2.14-2 libjbig0_2.1-6.1 libjpeg62-turbo_1:2.1.5-2 libjs-prototype_1.7.3-1 libjs-scriptaculous_1.9.0-3 libjson-perl_4.10000-1 libk5crypto3_1.20.1-5 libkeyutils1_1.6.3-2 libkrb5-3_1.20.1-5 libkrb5support0_1.20.1-5 libksba8_1.6.5-2 libldap-2.5-0_2.5.13+dfsg-5+rpi1 libldap-dev_2.5.13+dfsg-5+rpi1 libldap2-dev_2.5.13+dfsg-5+rpi1 liblerc4_4.0.0+ds-4 liblist-moreutils-perl_0.430-2 liblist-moreutils-xs-perl_0.430-3+b1 liblocale-gettext-perl_1.07-6 liblua5.3-0_5.3.6-2 liblwp-mediatypes-perl_6.04-2 liblwp-protocol-https-perl_6.11-1 liblz4-1_1.9.4-1+rpi1+b1 liblzma5_5.4.5-0.1 libmagic-mgc_1:5.45-2 libmagic1_1:5.45-2 libmd0_1.1.0-1 libmodule-build-perl_0.423400-2 libmount1_2.39.3-6 libmpc3_1.3.1-1 libmpfr6_4.2.1-1 libncursesw6_6.4+20231209-1 libnet-http-perl_6.23-1 libnet-ssleay-perl_1.92-2+b2 libnettle8_3.9.1-2 libnghttp2-14_1.58.0-1 libnpth0_1.6-3 libnsl-dev_1.3.0-3 libnsl2_1.3.0-3 libnumber-compare-perl_0.03-3 libp11-kit0_0.25.3-2 libpam-modules_1.5.2-9.1 libpam-modules-bin_1.5.2-9.1 libpam-runtime_1.5.2-9.1 libpam0g_1.5.2-9.1 libpcre2-16-0_10.42-4 libpcre2-32-0_10.42-4 libpcre2-8-0_10.42-4 libpcre2-dev_10.42-4 libpcre2-posix3_10.42-4 libperl5.36_5.36.0-10 libpipeline1_1.5.7-1 libpng16-16_1.6.40-3 libpq5_16.1-1+rpi1 libpsl5_0.21.2-1+b1 libpython3-stdlib_3.11.4-5 libpython3.11-minimal_3.11.7-2 libpython3.11-stdlib_3.11.7-2 librav1e0_0.6.6-3+rpi1 libreadline8_8.2-3 librtmp1_2.4+20151223.gitfa8646d.1-2+b2 libsasl2-2_2.1.28+dfsg1-4 libsasl2-modules-db_2.1.28+dfsg1-4 libsctp-dev_1.0.19+dfsg-2 libsctp1_1.0.19+dfsg-2 libseccomp2_2.5.4-2+rpi1 libselinux1_3.5-1 libsemanage-common_3.5-1 libsemanage2_3.5-1 libsepol2_3.5-2 libsframe1_2.41-6+rpi1 libsharpyuv0_1.3.2-0.3 libsmartcols1_2.39.3-6 libsqlite3-0_3.44.2-1 libss2_1.47.0-2 libssh2-1_1.11.0-4 libssl3_3.1.4-2 libstatistics-descriptive-perl_3.0801-1 libstdc++-12-dev_12.3.0-13+rpi1 libstdc++-13-dev_13.2.0-7+rpi1 libstdc++6_13.2.0-7+rpi1 libstring-approx-perl_3.28-2+b1 libsub-override-perl_0.10-1 libsub-uplevel-perl_0.2800-3 libsvtav1enc1d1_1.7.0+dfsg-2 libsystemd0_254.5-1+rpi1 libtasn1-6_4.19.0-3 libterm-readkey-perl_2.38-2+b1 libtest-deep-perl_1.204-1 libtest-differences-perl_0.71-1 libtest-exception-perl_0.43-3 libtest-most-perl_0.38-1 libtest-warn-perl_0.37-2 libtext-charwidth-perl_0.04-11 libtext-diff-perl_1.45-2 libtext-glob-perl_0.11-3 libtext-iconv-perl_1.7-8 libtiff6_4.5.1+git230720-3 libtimedate-perl_2.3300-2 libtinfo6_6.4+20231209-1 libtirpc-common_1.3.4+ds-1 libtirpc-dev_1.3.4+ds-1 libtirpc3_1.3.4+ds-1 libtool_2.4.7-7 libtry-tiny-perl_0.31-2 libubsan1_13.2.0-7+rpi1 libuchardet0_0.0.8-1 libudev1_254.5-1+rpi1 libunistring5_1.1-2 liburi-perl_5.21-1 libuuid1_2.39.3-6 libvm-ec2-perl_1.28-4 libwebp7_1.3.2-0.3 libwww-perl_6.72-1 libwww-robotrules-perl_6.02-1 libx11-6_2:1.8.7-1 libx11-data_2:1.8.7-1 libxau6_1:1.0.9-1 libxcb1_1.15-1 libxdmcp6_1:1.1.2-3 libxml-libxml-perl_2.0207+dfsg+really+2.0134-1+b2 libxml-namespacesupport-perl_1.12-2 libxml-sax-base-perl_1.09-3 libxml-sax-perl_1.02+dfsg-3 libxml-simple-perl_2.25-2 libxml2_2.9.14+dfsg-1.3 libxpm4_1:3.5.17-1 libxxhash0_0.8.2-2 libyuv0_0.0~git20231118.e6d5adb-1 libzstd1_1.5.5+dfsg2-2 linux-libc-dev_6.5.6-1+rpi1 login_1:4.13+dfsg1-3 logsave_1.47.0-2 lsb-base_11.6+rpi1 m4_1.4.19-4 make_4.3-4.1 man-db_2.12.0-3 mawk_1.3.4.20231126-1 media-types_10.1.0 mount_2.39.3-6 nano_7.2-1 ncurses-base_6.4+20231209-1 ncurses-bin_6.4+20231209-1 netbase_6.4 openssl_3.1.4-2 passwd_1:4.13+dfsg1-3 patch_2.7.6-7 perl_5.36.0-10 perl-base_5.36.0-10 perl-modules-5.36_5.36.0-10 perl-openssl-defaults_7+b1 pinentry-curses_1.2.1-3 po-debconf_1.0.21+nmu1 python3_3.11.4-5 python3-minimal_3.11.4-5 python3.11_3.11.7-2 python3.11-minimal_3.11.7-2 raspbian-archive-keyring_20120528.2 readline-common_8.2-3 rename_2.02-1 rpcsvc-proto_1.4.3-1 sbuild-build-depends-main-dummy_0.invalid.0 sed_4.9-1 sensible-utils_0.0.20 sqlite3_3.44.2-1 sysvinit-utils_3.08-5 tar_1.34+dfsg-1.3 tzdata_2023c-11 ucf_3.0043+nmu1 usr-is-merged_38 usrmerge_38 util-linux_2.39.3-6 uuid-dev_2.39.3-6 xz-utils_5.4.5-0.1 zlib1g_1:1.2.13.dfsg-3
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
-----BEGIN PGP SIGNED MESSAGE-----
Hash: SHA256
Format: 3.0 (quilt)
Source: gbrowse
Binary: gbrowse, gbrowse-data, gbrowse-calign
Architecture: any all
Version: 2.56+dfsg-12
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Uploaders: Olivier Sallou <osallou@debian.org>, Charles Plessy <plessy@debian.org>, Aaron M. Ucko <ucko@debian.org>, Andreas Tille <tille@debian.org>
Homepage: http://gmod.org/wiki/GBrowse
Standards-Version: 4.6.2
Vcs-Browser: https://salsa.debian.org/med-team/gbrowse
Vcs-Git: https://salsa.debian.org/med-team/gbrowse.git
Testsuite: autopkgtest-pkg-perl
Build-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
Package-List:
gbrowse deb science optional arch=all
gbrowse-calign deb science optional arch=any
gbrowse-data deb science optional arch=all
Checksums-Sha1:
269fba6b75112b0a2037350308914f05d4747697 4355977 gbrowse_2.56+dfsg.orig.tar.gz
5e72e89de1c1adf2ac189a41ad2611a8775c30a5 24584 gbrowse_2.56+dfsg-12.debian.tar.xz
Checksums-Sha256:
f6da1ff315b17ec260810cf439a54ae7ddd66728015be03f7fbb6ba795676f81 4355977 gbrowse_2.56+dfsg.orig.tar.gz
4e104a986d7f79ba9d3381909dec5defb4dae011e36b01636de911d92287fed1 24584 gbrowse_2.56+dfsg-12.debian.tar.xz
Files:
9638dd3e43897548172911706277f177 4355977 gbrowse_2.56+dfsg.orig.tar.gz
cabc4b9cf63c022b8b95e0e73b935951 24584 gbrowse_2.56+dfsg-12.debian.tar.xz
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gpgv: Signature made Thu Dec 7 20:43:33 2023 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: cannot verify inline signature for ./gbrowse_2.56+dfsg-12.dsc: no acceptable signature found
dpkg-source: info: extracting gbrowse in /<<PKGBUILDDIR>>
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
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LANG=en_GB.UTF-8
LC_ALL=C.UTF-8
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=trixie-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=trixie-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=124
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=trixie-staging-armhf-sbuild-caa79d06-8b33-4eaf-8ca5-7b5980f12c68
SCHROOT_UID=114
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -mRaspbian pi5 test autobuilder <root@raspbian.org> -B -rfakeroot
dpkg-buildpackage: info: source package gbrowse
dpkg-buildpackage: info: source version 2.56+dfsg-12
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build .
dpkg-buildpackage: info: host architecture armhf
debian/rules clean
dh clean --with apache2
dh_clean
debian/rules binary-arch
dh binary-arch --with apache2
dh_update_autotools_config -a
dh_autoreconf -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=arm-linux-gnueabihf-gcc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -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 '/<<PKGBUILDDIR>>'
dh_auto_build -a
/usr/bin/perl Build
NOTE: Run ./Build reconfig to change existing configuration.
Building GBrowse
arm-linux-gnueabihf-gcc -I/<<PKGBUILDDIR>>/libalign -I/usr/lib/arm-linux-gnueabihf/perl/5.36/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 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -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')
arm-linux-gnueabihf-gcc -g -O2 -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -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 /<<PKGBUILDDIR>>/install_util/GBrowseInstall.pm line 778.
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
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 /<<PKGBUILDDIR>>/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 ..............
1..7
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok
t/02.rearchitecture.t .....
1..90
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok 8
ok 9
ok 10
ok 11
ok 12
ok 13
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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.
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
ok 1
ok 2
ok 3
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ok 5
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ok 150
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.
t/04.remoteserver.t .......
1..43
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
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ok 14
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ok 19
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ok 21
ok 22
ok 23
ok 24
ok 25
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ok 27
ok 28
ok 29
ok 30
ok 31
ok 32
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ok 35
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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.
t/05.deferredrendering.t ..
1..19
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok 8
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ok 19
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
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
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ok 8
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ok 12
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ok 14
ok 15
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ok 21
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ok 23
ok 24
ok 25
ok 26
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 5.036000 for linux
# Current time local: Fri Jan 19 12:12:50 2024
# Current time GMT: Fri Jan 19 12:12:50 2024
# Using Test.pm version 1.31
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok
All tests successful.
Files=10, Tests=448, 21 wallclock secs ( 0.08 usr 0.04 sys + 13.12 cusr 3.88 csys = 17.12 CPU)
Result: PASS
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
dh_prep -a
debian/rules override_dh_installdirs
make[1]: Entering directory '/<<PKGBUILDDIR>>'
# svn(-buildpackage) seems to ignore the x bit
chmod +x debian/gbrowse-calign.dirs
dh_installdirs
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
./Build --install_base=debian/gbrowse debianinstall
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /<<PKGBUILDDIR>>/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/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
Installing debian/gbrowse/man/man1/bed2gff3.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_aws_balancer.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_clean.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_grow_cloud_vol.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_sync_aws_slave.pl.1p
Installing debian/gbrowse/man/man1/gtf2gff3.pl.1p
Installing debian/gbrowse/man/man1/load_genbank.pl.1p
Installing debian/gbrowse/man/man1/make_das_conf.pl.1p
Installing debian/gbrowse/man/man1/ucsc_genes2gff.pl.1p
Installing debian/gbrowse/man/man1/wiggle2gff3.pl.1p
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/das
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbgff
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_details
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_gmap
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_key_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_login
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_syn
Installing debian/gbrowse/etc/gbrowse/aws_balancer.conf
Installing debian/gbrowse/etc/gbrowse/detail_select_menu.conf
Installing debian/gbrowse/etc/gbrowse/enzymes.txt
Installing debian/gbrowse/etc/gbrowse/GBrowse.conf
Installing debian/gbrowse/etc/gbrowse/log4perl.conf
Installing debian/gbrowse/etc/gbrowse/pop_demo.conf
Installing debian/gbrowse/etc/gbrowse/renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/slave_preload.conf
Installing debian/gbrowse/etc/gbrowse/submitter_plugin.conf
Installing debian/gbrowse/etc/gbrowse/volvox.conf
Installing debian/gbrowse/etc/gbrowse/yeast_chr1+2.conf
Installing debian/gbrowse/etc/gbrowse/yeast_renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/yeast_simple.conf
Installing debian/gbrowse/etc/gbrowse/languages/de.pm
Installing debian/gbrowse/etc/gbrowse/languages/en.pm
Installing debian/gbrowse/etc/gbrowse/languages/es.pm
Installing debian/gbrowse/etc/gbrowse/languages/fr.pm
Installing debian/gbrowse/etc/gbrowse/languages/is.pm
Installing debian/gbrowse/etc/gbrowse/languages/it.pm
Installing debian/gbrowse/etc/gbrowse/languages/ja.pm
Installing debian/gbrowse/etc/gbrowse/languages/ko.pm
Installing debian/gbrowse/etc/gbrowse/languages/nl.pm
Installing debian/gbrowse/etc/gbrowse/languages/pl.pm
Installing debian/gbrowse/etc/gbrowse/languages/POSIX.pm
Installing debian/gbrowse/etc/gbrowse/languages/ru.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh_cn.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_gif_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_jpeg_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.PMS
Installing debian/gbrowse/etc/gbrowse/MobyServices/moby.conf
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_formatted_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_html_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_plain_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_xml_renderer.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Aligner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AlignTwoSequences.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AttributeHiliter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/BatchDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Blat.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CMapDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CreateBlastDB.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FastaDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FBTableDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FilterTest.pm
Installing debian/gbrowse/etc/gbrowse/plugins/GeneFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/LDAPAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/OligoFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PamAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PrimerDesigner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/ProteinDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RandomGene.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RestrictionAnnotator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SequenceDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SimpleTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SinWave.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SourceTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Spectrogram.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Submitter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/test.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestAuthenticator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackFinder.pm
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/themes/solid_gray_colors
Installing debian/gbrowse/etc/gbrowse/themes/transparent_colors
Installing debian/gbrowse/etc/gbrowse/themes/warm_colors
Installing debian/gbrowse/var/lib/gbrowse/databases/admin_uploads/README
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/alignments/rice.aln.gz
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/ideograms/human_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/mouse_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/rat_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/pop_demo/pop_demo.gff3
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/yeast_scaffolds/chr1.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr2.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/cloud_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_karyotype_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_syn_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html.zh
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gmod_cog.jpeg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/vbox_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_autocomplete.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_elements.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_solid.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_transparent.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_warm.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/karyotype.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/menulink.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/menulink_active.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/snapshots.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/subtracktable.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/titlebar-default.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/titlebar-safari.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/tracks.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/default_theme.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/dropdown.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/helper.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/favicon.ico
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/icon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern1.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern3.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_get_sessionid.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_new_sessionid.pl
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/README
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/test_file.bed
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/cloud.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/lrock005.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/steel.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/balloon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/balloon_ie.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/close.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/down_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/down_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/up_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/up_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/balloon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/close.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/down_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/down_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/up_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/up_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ajax-loader.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/blue_peaks.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/check.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/cursor-ewmove.ico
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/dark_0.4_pixel.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/download.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/empty.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ex.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ficon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ficon_2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/fmini.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/fmini_2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green3.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green4.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green5.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green6.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green_l1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green_l2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green_r1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/grey.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/grey_0.4_pixel.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/menu.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/open_open.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/plus.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/plus.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/pop_in.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/pop_out.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/query.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/red.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/red1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/snap_check.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/snap_mail.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/square.xpm
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/help/upload_field.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/help/upload_list.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/help/worm_exons_spec.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/help/worm_telomeric_spec.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/help/yeast_I_genes_spec.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/openid/aim-logo.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/openid/blogspot-logo.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/openid/livejournal-logo.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/openid/myopenid-logo.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/openid/yahoo-logo.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/ajax_upload.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/autocomplete.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/balloon.config.js
Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/balloon.js
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/js/builder.js
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Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/wig2bigwig.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/wiggle.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Plugin/AuthPlugin.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/Login.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/SnapshotManager.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/TrackConfig.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML/TrackListing.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/HTML/TrackListing/Categories.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave/AWS_Balancer.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render/Slave/Status.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/TrackDumper/RichSeqMaker.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Database.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Filesystem.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/CGI/Toggle.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/DB/SyntenyBlock.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/DB/SyntenyIO.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/Graphics/Browser.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/Graphics/Browser/I18n.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/Graphics/Browser/PageSettings.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/Graphics/Browser/Synteny.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Legacy/Graphics/Browser/Util.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/GBrowse/ConfigData.pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::match_gap.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::reftranscript.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::waba_alignment.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::wormbase_gene.3pm
Installing debian/gbrowse/man/man3/Bio::DB::SeqFeature::Store::Alias.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger::Tag.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::AuthorizedFeatureFile.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataBase.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::archive.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::useq.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataSource.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::GFFhelper.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Markup.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::OptionPick.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PadAlignment.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin::AuthPlugin.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PluginSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Realign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Region.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RegionSearch.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RemoteSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render::Slave::AWS_Balancer.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::Util.3pm
Installing debian/gbrowse/man/man3/CGI::Toggle.3pm
Installing debian/gbrowse/man/man3/GBrowse::ConfigData.3pm
Installing debian/gbrowse/man/man3/Legacy::Graphics::Browser.3pm
Installing debian/gbrowse/bin/bed2gff3.pl
Installing debian/gbrowse/bin/gbrowse_aws_balancer.pl
Installing debian/gbrowse/bin/gbrowse_change_passwd.pl
Installing debian/gbrowse/bin/gbrowse_clean.pl
Installing debian/gbrowse/bin/gbrowse_configure_slaves.pl
Installing debian/gbrowse/bin/gbrowse_create_account.pl
Installing debian/gbrowse/bin/gbrowse_grow_cloud_vol.pl
Installing debian/gbrowse/bin/gbrowse_import_ucsc_db.pl
Installing debian/gbrowse/bin/gbrowse_metadb_config.pl
Installing debian/gbrowse/bin/gbrowse_set_admin_passwd.pl
Installing debian/gbrowse/bin/gbrowse_slave
Installing debian/gbrowse/bin/gbrowse_syn_load_alignment_database.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignments_msa.pl
Installing debian/gbrowse/bin/gbrowse_sync_aws_slave.pl
Installing debian/gbrowse/bin/gtf2gff3.pl
Installing debian/gbrowse/bin/load_genbank.pl
Installing debian/gbrowse/bin/make_das_conf.pl
Installing debian/gbrowse/bin/scan_gbrowse.pl
Installing debian/gbrowse/bin/ucsc_genes2gff.pl
Installing debian/gbrowse/bin/wiggle2gff3.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 /<<PKGBUILDDIR>>/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 /<<PKGBUILDDIR>>/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/default/gbrowse-aws-balancer
Installing debian/gbrowse/etc/default/gbrowse-slave
Installing debian/gbrowse/etc/init.d/gbrowse-aws-balancer
Installing debian/gbrowse/etc/init.d/gbrowse-slave
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-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/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/CAlign/
mkdir -p debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.36/Bio/Graphics/Browser2/
mv debian/gbrowse/usr/share/perl5/auto/Bio/Graphics/Browser2/CAlign/* debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/CAlign/
mv debian/gbrowse/usr/share/perl5/Bio/Graphics/Browser2/CAlign.pm debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.36/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 /<<PKGBUILDDIR>>/debian/gbrowse/etc -name '*.new' | xargs file-rename 's/.new//'
rm -rf /<<PKGBUILDDIR>>/debian/gbrowse/usr/share/perl5/auto
# Update conf files
sed -i 's/gbrowse2/gbrowse/g' /<<PKGBUILDDIR>>/debian/gbrowse/etc/gbrowse/yeast*.conf
sed -i 's/gbrowse2/gbrowse/g' /<<PKGBUILDDIR>>/debian/gbrowse/etc/gbrowse/slave*.conf
# move OpenID constumer secret to /etc/gbrowse to make it system admin configurable
mv /<<PKGBUILDDIR>>/debian/gbrowse/usr/share/perl5/GBrowse/ConfigData.pm /<<PKGBUILDDIR>>/debian/gbrowse/etc/gbrowse/ConfigData.pm
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_install -a
dh_apache2 -a
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<PKGBUILDDIR>>'
#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 '/<<PKGBUILDDIR>>'
dh_lintian -a
dh_perl -a
debian/rules override_dh_link
make[1]: Entering directory '/<<PKGBUILDDIR>>'
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 '/<<PKGBUILDDIR>>'
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -a
dh_dwz -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'gbrowse-calign' in '../gbrowse-calign_2.56+dfsg-12_armhf.deb'.
dpkg-deb: building package 'gbrowse-calign-dbgsym' in '../gbrowse-calign-dbgsym_2.56+dfsg-12_armhf.deb'.
dpkg-genbuildinfo --build=any -O../gbrowse_2.56+dfsg-12_armhf.buildinfo
dpkg-genchanges --build=any -mRaspbian pi5 test autobuilder <root@raspbian.org> -O../gbrowse_2.56+dfsg-12_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2024-01-19T12:12:54Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
gbrowse_2.56+dfsg-12_armhf.changes:
-----------------------------------
Format: 1.8
Date: Thu, 07 Dec 2023 21:40:51 +0100
Source: gbrowse
Binary: gbrowse-calign gbrowse-calign-dbgsym
Architecture: armhf
Version: 2.56+dfsg-12
Distribution: trixie-staging
Urgency: medium
Maintainer: Raspbian pi5 test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
gbrowse-calign - CAlign helper
Closes: 1037272 1044196
Changes:
gbrowse (2.56+dfsg-12) unstable; urgency=medium
.
[ Vagrant Cascadian ]
* Build reproducibly
Closes: #1037272
.
[ Andreas Tille ]
* Standards-Version: 4.6.2 (routine-update)
* Remove trailing whitespace in debian/changelog (routine-update)
* Drop dependency lsb-base
* Fix clean target
Closes: #1044196
Checksums-Sha1:
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fb6f669897e2fd70624f8f07265a98c5e903bd8e 34728 gbrowse-calign_2.56+dfsg-12_armhf.deb
389080e47f1827fa56df8a5fa0fc69efd070a3d0 10352 gbrowse_2.56+dfsg-12_armhf.buildinfo
Checksums-Sha256:
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d4637f2fd9e5e136a7764286879a8cb4c827e772d06cdb591cabfc77d453ae9b 34728 gbrowse-calign_2.56+dfsg-12_armhf.deb
a251aea7168af26e2a6f1a0769fb106f541783fb06be31350faf3c79c5965267 10352 gbrowse_2.56+dfsg-12_armhf.buildinfo
Files:
e810c20eeee9805d1cd5b61156069604 29300 debug optional gbrowse-calign-dbgsym_2.56+dfsg-12_armhf.deb
084bcaf2501161999e522e55bc72a21a 34728 science optional gbrowse-calign_2.56+dfsg-12_armhf.deb
978abac503111136db4e294e54428cc8 10352 science optional gbrowse_2.56+dfsg-12_armhf.buildinfo
+------------------------------------------------------------------------------+
| Buildinfo |
+------------------------------------------------------------------------------+
Format: 1.0
Source: gbrowse
Binary: gbrowse-calign gbrowse-calign-dbgsym
Architecture: armhf
Version: 2.56+dfsg-12
Checksums-Md5:
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084bcaf2501161999e522e55bc72a21a 34728 gbrowse-calign_2.56+dfsg-12_armhf.deb
Checksums-Sha1:
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fb6f669897e2fd70624f8f07265a98c5e903bd8e 34728 gbrowse-calign_2.56+dfsg-12_armhf.deb
Checksums-Sha256:
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d4637f2fd9e5e136a7764286879a8cb4c827e772d06cdb591cabfc77d453ae9b 34728 gbrowse-calign_2.56+dfsg-12_armhf.deb
Build-Origin: Raspbian
Build-Architecture: armhf
Build-Date: Fri, 19 Jan 2024 12:12:54 +0000
Build-Path: /<<PKGBUILDDIR>>
Build-Tainted-By:
merged-usr-via-aliased-dirs
Installed-Build-Depends:
apache2-bin (= 2.4.58-1),
apache2-dev (= 2.4.58-1),
autoconf (= 2.71-3),
automake (= 1:1.16.5-1.3),
autopoint (= 0.21-14),
autotools-dev (= 20220109.1),
base-files (= 13+rpi1),
base-passwd (= 3.6.3),
bash (= 5.2.21-2),
binutils (= 2.41-6+rpi1),
binutils-arm-linux-gnueabihf (= 2.41-6+rpi1),
binutils-common (= 2.41-6+rpi1),
bioperl (= 1.7.8-1),
bsdextrautils (= 2.39.3-6),
bsdutils (= 1:2.39.3-6),
build-essential (= 12.10),
bzip2 (= 1.0.8-5+b2),
ca-certificates (= 20230311),
coreutils (= 9.1-1),
cpp (= 4:13.2.0-1+rpi1),
cpp-12 (= 12.3.0-13+rpi1),
cpp-13 (= 13.2.0-7+rpi1),
dash (= 0.5.12-6),
debconf (= 1.5.82),
debhelper (= 13.11.9),
debianutils (= 5.14),
dh-autoreconf (= 20),
dh-exec (= 0.28),
dh-strip-nondeterminism (= 1.13.1-1),
diffutils (= 1:3.10-1),
dpkg (= 1.22.1+rpi1),
dpkg-dev (= 1.22.1+rpi1),
dwz (= 0.15-1),
file (= 1:5.45-2),
findutils (= 4.9.0-5),
fontconfig-config (= 2.14.2-6),
fonts-dejavu-core (= 2.37-8),
fonts-dejavu-mono (= 2.37-8),
g++ (= 4:13.2.0-1+rpi1),
g++-13 (= 13.2.0-7+rpi1),
gcc (= 4:13.2.0-1+rpi1),
gcc-12 (= 12.3.0-13+rpi1),
gcc-12-base (= 12.3.0-13+rpi1),
gcc-13 (= 13.2.0-7+rpi1),
gcc-13-base (= 13.2.0-7+rpi1),
gettext (= 0.21-14),
gettext-base (= 0.21-14),
grep (= 3.11-3),
groff-base (= 1.23.0-3),
gzip (= 1.12-1),
hostname (= 3.23+nmu1),
init-system-helpers (= 1.66),
intltool-debian (= 0.35.0+20060710.6),
libabsl20220623 (= 20220623.1-3),
libacl1 (= 2.3.1-3),
libalgorithm-diff-perl (= 1.201-1),
libanyevent-cachedns-perl (= 0.08-3),
libanyevent-http-perl (= 2.25-2),
libanyevent-perl (= 7.170-2+b3),
libaom3 (= 3.7.1-1),
libapache-dbi-perl (= 1.12-3),
libapache2-mod-perl2 (= 2.0.13-1),
libapr1 (= 1.7.2-3),
libapr1-dev (= 1.7.2-3),
libaprutil1 (= 1.6.3-1),
libaprutil1-dbd-sqlite3 (= 1.6.3-1),
libaprutil1-dev (= 1.6.3-1),
libaprutil1-ldap (= 1.6.3-1),
libarchive-zip-perl (= 1.68-1),
libasan8 (= 13.2.0-7+rpi1),
libatomic1 (= 13.2.0-7+rpi1),
libattr1 (= 1:2.5.1-4),
libaudit-common (= 1:3.1.2-1),
libaudit1 (= 1:3.1.2-1),
libavif16 (= 1.0.3-1),
libbinutils (= 2.41-6+rpi1),
libbio-coordinate-perl (= 1.7.1-4),
libbio-db-biofetch-perl (= 1.7.3-4),
libbio-db-gff-perl (= 1.7.4-1),
libbio-db-seqfeature-perl (= 1.7.4-2),
libbio-graphics-perl (= 2.40-6),
libbio-perl-perl (= 1.7.8-1),
libblkid1 (= 2.39.3-6),
libbrotli1 (= 1.1.0-2),
libbsd0 (= 0.11.8-1),
libbz2-1.0 (= 1.0.8-5+b2),
libc-bin (= 2.37-12+rpi2),
libc-dev-bin (= 2.37-12+rpi2),
libc6 (= 2.37-12+rpi2),
libc6-dev (= 2.37-12+rpi2),
libcap-ng0 (= 0.8.3-3),
libcap2 (= 1:2.66-4),
libcapture-tiny-perl (= 0.48-2),
libcc1-0 (= 13.2.0-7+rpi1),
libcgi-pm-perl (= 4.60-1),
libcgi-session-perl (= 4.48-4),
libclass-data-inheritable-perl (= 0.08-3),
libclone-perl (= 0.46-1),
libcom-err2 (= 1.47.0-2),
libcommon-sense-perl (= 3.75-3),
libcrypt-dev (= 1:4.4.36-2),
libcrypt1 (= 1:4.4.36-2),
libctf-nobfd0 (= 2.41-6+rpi1),
libctf0 (= 2.41-6+rpi1),
libcurl4 (= 8.5.0-2+rpi1),
libdata-stag-perl (= 0.14-3),
libdav1d7 (= 1.3.0-2+rpi1),
libdb5.3 (= 5.3.28+dfsg2-4),
libdbd-pg-perl (= 3.18.0-1),
libdbd-sqlite3-perl (= 1.74-1),
libdbi-perl (= 1.643-4),
libde265-0 (= 1.0.15-1+rpi1),
libdebconfclient0 (= 0.271),
libdebhelper-perl (= 13.11.9),
libdeflate0 (= 1.18-1),
libdevel-stacktrace-perl (= 2.0400-2),
libdevel-symdump-perl (= 2.18-5),
libdpkg-perl (= 1.22.1+rpi1),
libelf1 (= 0.188-2.1+rpi1),
libencode-locale-perl (= 1.05-3),
libexception-class-perl (= 1.45-1),
libexpat1 (= 2.5.0-2),
libexpat1-dev (= 2.5.0-2),
libexporter-tiny-perl (= 1.006002-1),
libffi8 (= 3.4.4-2),
libfile-find-rule-perl (= 0.34-3),
libfile-listing-perl (= 6.16-1),
libfile-stripnondeterminism-perl (= 1.13.1-1),
libfontconfig1 (= 2.14.2-6),
libfreetype6 (= 2.13.2+dfsg-1),
libgav1-1 (= 0.18.0-1+rpi1+b1),
libgcc-12-dev (= 12.3.0-13+rpi1),
libgcc-13-dev (= 13.2.0-7+rpi1),
libgcc-s1 (= 13.2.0-7+rpi1),
libgcrypt20 (= 1.10.3-2),
libgd-perl (= 2.78-1),
libgd3 (= 2.3.3-9+b1),
libgdbm-compat4 (= 1.23-5),
libgdbm6 (= 1.23-5),
libgmp10 (= 2:6.3.0+dfsg-2),
libgnutls30 (= 3.8.2-1),
libgomp1 (= 13.2.0-7+rpi1),
libgpg-error0 (= 1.47-3),
libgssapi-krb5-2 (= 1.20.1-5),
libheif-plugin-dav1d (= 1.17.6-1),
libheif-plugin-libde265 (= 1.17.6-1),
libheif1 (= 1.17.6-1),
libhogweed6 (= 3.9.1-2),
libhtml-parser-perl (= 3.81-1),
libhtml-tagset-perl (= 3.20-6),
libhtml-tree-perl (= 5.07-3),
libhttp-cookies-perl (= 6.11-1),
libhttp-daemon-perl (= 6.16-1),
libhttp-date-perl (= 6.06-1),
libhttp-message-perl (= 6.45-1),
libhttp-negotiate-perl (= 6.01-2),
libicu72 (= 72.1-4),
libidn2-0 (= 2.3.4-1),
libio-html-perl (= 1.004-3),
libio-socket-ssl-perl (= 2.084-1),
libio-string-perl (= 1.08-4),
libisl23 (= 0.26-3),
libjansson4 (= 2.14-2),
libjbig0 (= 2.1-6.1),
libjpeg62-turbo (= 1:2.1.5-2),
libjs-prototype (= 1.7.3-1),
libjs-scriptaculous (= 1.9.0-3),
libjson-perl (= 4.10000-1),
libk5crypto3 (= 1.20.1-5),
libkeyutils1 (= 1.6.3-2),
libkrb5-3 (= 1.20.1-5),
libkrb5support0 (= 1.20.1-5),
libldap-2.5-0 (= 2.5.13+dfsg-5+rpi1),
libldap-dev (= 2.5.13+dfsg-5+rpi1),
libldap2-dev (= 2.5.13+dfsg-5+rpi1),
liblerc4 (= 4.0.0+ds-4),
liblist-moreutils-perl (= 0.430-2),
liblist-moreutils-xs-perl (= 0.430-3+b1),
liblua5.3-0 (= 5.3.6-2),
liblwp-mediatypes-perl (= 6.04-2),
liblwp-protocol-https-perl (= 6.11-1),
liblz4-1 (= 1.9.4-1+rpi1+b1),
liblzma5 (= 5.4.5-0.1),
libmagic-mgc (= 1:5.45-2),
libmagic1 (= 1:5.45-2),
libmd0 (= 1.1.0-1),
libmodule-build-perl (= 0.423400-2),
libmount1 (= 2.39.3-6),
libmpc3 (= 1.3.1-1),
libmpfr6 (= 4.2.1-1),
libncursesw6 (= 6.4+20231209-1),
libnet-http-perl (= 6.23-1),
libnet-ssleay-perl (= 1.92-2+b2),
libnettle8 (= 3.9.1-2),
libnghttp2-14 (= 1.58.0-1),
libnsl-dev (= 1.3.0-3),
libnsl2 (= 1.3.0-3),
libnumber-compare-perl (= 0.03-3),
libp11-kit0 (= 0.25.3-2),
libpam-modules (= 1.5.2-9.1),
libpam-modules-bin (= 1.5.2-9.1),
libpam-runtime (= 1.5.2-9.1),
libpam0g (= 1.5.2-9.1),
libpcre2-16-0 (= 10.42-4),
libpcre2-32-0 (= 10.42-4),
libpcre2-8-0 (= 10.42-4),
libpcre2-dev (= 10.42-4),
libpcre2-posix3 (= 10.42-4),
libperl5.36 (= 5.36.0-10),
libpipeline1 (= 1.5.7-1),
libpng16-16 (= 1.6.40-3),
libpq5 (= 16.1-1+rpi1),
libpsl5 (= 0.21.2-1+b1),
libpython3-stdlib (= 3.11.4-5),
libpython3.11-minimal (= 3.11.7-2),
libpython3.11-stdlib (= 3.11.7-2),
librav1e0 (= 0.6.6-3+rpi1),
libreadline8 (= 8.2-3),
librtmp1 (= 2.4+20151223.gitfa8646d.1-2+b2),
libsasl2-2 (= 2.1.28+dfsg1-4),
libsasl2-modules-db (= 2.1.28+dfsg1-4),
libsctp-dev (= 1.0.19+dfsg-2),
libsctp1 (= 1.0.19+dfsg-2),
libseccomp2 (= 2.5.4-2+rpi1),
libselinux1 (= 3.5-1),
libsframe1 (= 2.41-6+rpi1),
libsharpyuv0 (= 1.3.2-0.3),
libsmartcols1 (= 2.39.3-6),
libsqlite3-0 (= 3.44.2-1),
libssh2-1 (= 1.11.0-4),
libssl3 (= 3.1.4-2),
libstatistics-descriptive-perl (= 3.0801-1),
libstdc++-13-dev (= 13.2.0-7+rpi1),
libstdc++6 (= 13.2.0-7+rpi1),
libstring-approx-perl (= 3.28-2+b1),
libsub-override-perl (= 0.10-1),
libsub-uplevel-perl (= 0.2800-3),
libsvtav1enc1d1 (= 1.7.0+dfsg-2),
libsystemd0 (= 254.5-1+rpi1),
libtasn1-6 (= 4.19.0-3),
libterm-readkey-perl (= 2.38-2+b1),
libtest-deep-perl (= 1.204-1),
libtest-differences-perl (= 0.71-1),
libtest-exception-perl (= 0.43-3),
libtest-most-perl (= 0.38-1),
libtest-warn-perl (= 0.37-2),
libtext-diff-perl (= 1.45-2),
libtext-glob-perl (= 0.11-3),
libtiff6 (= 4.5.1+git230720-3),
libtimedate-perl (= 2.3300-2),
libtinfo6 (= 6.4+20231209-1),
libtirpc-common (= 1.3.4+ds-1),
libtirpc-dev (= 1.3.4+ds-1),
libtirpc3 (= 1.3.4+ds-1),
libtool (= 2.4.7-7),
libtry-tiny-perl (= 0.31-2),
libubsan1 (= 13.2.0-7+rpi1),
libuchardet0 (= 0.0.8-1),
libudev1 (= 254.5-1+rpi1),
libunistring5 (= 1.1-2),
liburi-perl (= 5.21-1),
libuuid1 (= 2.39.3-6),
libvm-ec2-perl (= 1.28-4),
libwebp7 (= 1.3.2-0.3),
libwww-perl (= 6.72-1),
libwww-robotrules-perl (= 6.02-1),
libx11-6 (= 2:1.8.7-1),
libx11-data (= 2:1.8.7-1),
libxau6 (= 1:1.0.9-1),
libxcb1 (= 1.15-1),
libxdmcp6 (= 1:1.1.2-3),
libxml-libxml-perl (= 2.0207+dfsg+really+2.0134-1+b2),
libxml-namespacesupport-perl (= 1.12-2),
libxml-sax-base-perl (= 1.09-3),
libxml-sax-perl (= 1.02+dfsg-3),
libxml-simple-perl (= 2.25-2),
libxml2 (= 2.9.14+dfsg-1.3),
libxpm4 (= 1:3.5.17-1),
libyuv0 (= 0.0~git20231118.e6d5adb-1),
libzstd1 (= 1.5.5+dfsg2-2),
linux-libc-dev (= 6.5.6-1+rpi1),
login (= 1:4.13+dfsg1-3),
m4 (= 1.4.19-4),
make (= 4.3-4.1),
man-db (= 2.12.0-3),
mawk (= 1.3.4.20231126-1),
media-types (= 10.1.0),
ncurses-base (= 6.4+20231209-1),
ncurses-bin (= 6.4+20231209-1),
netbase (= 6.4),
openssl (= 3.1.4-2),
patch (= 2.7.6-7),
perl (= 5.36.0-10),
perl-base (= 5.36.0-10),
perl-modules-5.36 (= 5.36.0-10),
perl-openssl-defaults (= 7+b1),
po-debconf (= 1.0.21+nmu1),
python3 (= 3.11.4-5),
python3-minimal (= 3.11.4-5),
python3.11 (= 3.11.7-2),
python3.11-minimal (= 3.11.7-2),
readline-common (= 8.2-3),
rename (= 2.02-1),
rpcsvc-proto (= 1.4.3-1),
sed (= 4.9-1),
sensible-utils (= 0.0.20),
sqlite3 (= 3.44.2-1),
sysvinit-utils (= 3.08-5),
tar (= 1.34+dfsg-1.3),
tzdata (= 2023c-11),
ucf (= 3.0043+nmu1),
usr-is-merged (= 38),
usrmerge (= 38),
util-linux (= 2.39.3-6),
uuid-dev (= 2.39.3-6),
xz-utils (= 5.4.5-0.1),
zlib1g (= 1:1.2.13.dfsg-3)
Environment:
DEB_BUILD_OPTIONS="parallel=4"
LANG="en_GB.UTF-8"
LC_ALL="C.UTF-8"
LC_COLLATE="C.UTF-8"
SOURCE_DATE_EPOCH="1701981651"
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
gbrowse-calign-dbgsym_2.56+dfsg-12_armhf.deb
--------------------------------------------
new Debian package, version 2.0.
size 29300 bytes: control archive=556 bytes.
417 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: gbrowse-calign-dbgsym
Source: gbrowse
Version: 2.56+dfsg-12
Auto-Built-Package: debug-symbols
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 41
Depends: gbrowse-calign (= 2.56+dfsg-12)
Section: debug
Priority: optional
Multi-Arch: same
Description: debug symbols for gbrowse-calign
Build-Ids: 6347906e6683fec78afe7bd8c22b9bf32437e061
drwxr-xr-x root/root 0 2023-12-07 20:40 ./
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/debug/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/debug/.build-id/63/
-rw-r--r-- root/root 31368 2023-12-07 20:40 ./usr/lib/debug/.build-id/63/47906e6683fec78afe7bd8c22b9bf32437e061.debug
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/doc/
lrwxrwxrwx root/root 0 2023-12-07 20:40 ./usr/share/doc/gbrowse-calign-dbgsym -> gbrowse-calign
gbrowse-calign_2.56+dfsg-12_armhf.deb
-------------------------------------
new Debian package, version 2.0.
size 34728 bytes: control archive=956 bytes.
650 bytes, 18 lines control
663 bytes, 7 lines md5sums
Package: gbrowse-calign
Source: gbrowse
Version: 2.56+dfsg-12
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 75
Depends: perl (>= 5.36.0-10), perlapi-5.36.0, libc6 (>= 2.4), gbrowse
Section: science
Priority: optional
Multi-Arch: same
Homepage: http://gmod.org/wiki/GBrowse
Description: CAlign helper
Generic Genome Browser is a simple but highly
configurable web-based genome browser. It is a component of the
Generic Model Organism Systems Database project (GMOD).
.
This package provides the CAlign helper
for use with Realign. It speeds up Smith-Waterman alignment.
drwxr-xr-x root/root 0 2023-12-07 20:40 ./
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/Bio/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/Bio/Graphics/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/Bio/Graphics/Browser2/
-rw-r--r-- root/root 1129 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/Bio/Graphics/Browser2/CAlign.pm
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/CAlign/
-rw-r--r-- root/root 0 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
-rw-r--r-- root/root 9476 2023-12-07 20:40 ./usr/lib/arm-linux-gnueabihf/perl5/5.36/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/doc/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/doc/gbrowse-calign/
-rw-r--r-- root/root 1054 2023-12-07 20:40 ./usr/share/doc/gbrowse-calign/changelog.Debian.gz
-rw-r--r-- root/root 19608 2017-01-15 21:26 ./usr/share/doc/gbrowse-calign/changelog.gz
-rw-r--r-- root/root 17948 2023-12-07 20:40 ./usr/share/doc/gbrowse-calign/copyright
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/man/
drwxr-xr-x root/root 0 2023-12-07 20:40 ./usr/share/man/man3/
-rw-r--r-- root/root 2160 2023-12-07 20:40 ./usr/share/man/man3/Bio::Graphics::Browser2::CAlign.3pm.gz
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Cleanup |
+------------------------------------------------------------------------------+
Purging /<<BUILDDIR>>
Not cleaning session: cloned chroot in use
+------------------------------------------------------------------------------+
| Summary |
+------------------------------------------------------------------------------+
Build Architecture: armhf
Build Type: any
Build-Space: 32404
Build-Time: 28
Distribution: trixie-staging
Host Architecture: armhf
Install-Time: 124
Job: gbrowse_2.56+dfsg-12
Machine Architecture: arm64
Package: gbrowse
Package-Time: 162
Source-Version: 2.56+dfsg-12
Space: 32404
Status: successful
Version: 2.56+dfsg-12
--------------------------------------------------------------------------------
Finished at 2024-01-19T12:12:54Z
Build needed 00:02:42, 32404k disk space