gbrowse →
2.56+dfsg-2+b1 →
armhf → 2017-07-30 05:02:52
sbuild (Debian sbuild) 0.72.0 (25 Oct 2016) on mb-lxc-02
+==============================================================================+
| gbrowse 2.56+dfsg-2+b1 (armhf) Sun, 30 Jul 2017 04:52:17 +0000 |
+==============================================================================+
Package: gbrowse
Version: 2.56+dfsg-2+b1
Source Version: 2.56+dfsg-2
Distribution: buster-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/buster-staging-armhf-sbuild-4f4bb612-5714-4d60-9d97-356f4cc77e91' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private buster-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private buster-staging/main armhf Packages [11.9 MB]
Fetched 11.9 MB in 5s (2123 kB/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| 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://anonscm.debian.org/git/debian-med/gbrowse.git
Please use:
git clone https://anonscm.debian.org/git/debian-med/gbrowse.git
to retrieve the latest (possibly unreleased) updates to the package.
Need to get 4382 kB of source archives.
Get:1 http://172.17.0.1/private buster-staging/main gbrowse 2.56+dfsg-2 (dsc) [2680 B]
Get:2 http://172.17.0.1/private buster-staging/main gbrowse 2.56+dfsg-2 (tar) [4356 kB]
Get:3 http://172.17.0.1/private buster-staging/main gbrowse 2.56+dfsg-2 (diff) [23.7 kB]
Fetched 4382 kB in 3s (1183 kB/s)
Download complete and in download only mode
I: NOTICE: Log filtering will replace 'build/gbrowse-wABFHv/gbrowse-2.56+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/gbrowse-wABFHv' with '<<BUILDDIR>>'
+------------------------------------------------------------------------------+
| Install build-essential |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-JEoIbh/apt_archive/sbuild-build-depends-core-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy
dpkg-scanpackages: info: Wrote 1 entries to output Packages file.
gpg: keybox '/<<BUILDDIR>>/resolver-JEoIbh/gpg/pubring.kbx' created
gpg: /<<BUILDDIR>>/resolver-JEoIbh/gpg/trustdb.gpg: trustdb created
gpg: key 37145E60F90AF620: public key "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" imported
gpg: Total number processed: 1
gpg: imported: 1
gpg: key 37145E60F90AF620: "Sbuild Signer (Sbuild Build Dependency Archive Key) <buildd-tools-devel@lists.alioth.debian.org>" not changed
gpg: key 37145E60F90AF620: secret key imported
gpg: Total number processed: 1
gpg: unchanged: 1
gpg: secret keys read: 1
gpg: secret keys imported: 1
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Release [957 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Sources [349 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Packages [431 B]
Fetched 2107 B in 0s (6162 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install core build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following packages were automatically installed and are no longer required:
ca-certificates libssl1.1 openssl
Use 'apt autoremove' to remove them.
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 5 not upgraded.
Need to get 776 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [776 B]
debconf: delaying package configuration, since apt-utils is not installed
Fetched 776 B in 0s (0 B/s)
Selecting previously unselected package sbuild-build-depends-core-dummy.
(Reading database ... 14837 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy_0.invalid.0_armhf.deb ...
Unpacking sbuild-build-depends-core-dummy (0.invalid.0) ...
Setting up sbuild-build-depends-core-dummy (0.invalid.0) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Check architectures |
+------------------------------------------------------------------------------+
Arch check ok (armhf included in any all)
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: bioperl, debhelper (>= 10), dh-apache2, dh-exec, apache2-dev, libbio-graphics-perl (>= 2.31), libbio-coordinate-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 | perl (<< 5.19), rename
Filtered Build-Depends: bioperl, debhelper (>= 10), dh-apache2, dh-exec, apache2-dev, libbio-graphics-perl (>= 2.31), libbio-coordinate-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
dpkg-deb: building package 'sbuild-build-depends-gbrowse-dummy' in '/<<BUILDDIR>>/resolver-JEoIbh/apt_archive/sbuild-build-depends-gbrowse-dummy.deb'.
dpkg-scanpackages: warning: Packages in archive but missing from override file:
dpkg-scanpackages: warning: sbuild-build-depends-core-dummy sbuild-build-depends-gbrowse-dummy
dpkg-scanpackages: info: Wrote 2 entries to output Packages file.
gpg: using "Sbuild Signer" as default secret key for signing
Ign:1 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ InRelease
Get:2 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Release [963 B]
Get:3 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Release.gpg [370 B]
Get:4 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Sources [697 B]
Get:5 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ Packages [758 B]
Fetched 2788 B in 0s (7812 B/s)
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
Reading package lists...
Install gbrowse 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-dev autoconf automake autopoint autotools-dev bioperl bsdmainutils
debhelper dh-autoreconf dh-exec dh-strip-nondeterminism file
fontconfig-config fonts-dejavu-core gettext gettext-base groff-base
intltool-debian libanyevent-cachedns-perl libanyevent-http-perl
libanyevent-perl libapr1 libapr1-dev libaprutil1 libaprutil1-dev
libarchive-zip-perl libbio-coordinate-perl libbio-graphics-perl
libbio-perl-perl libbsd0 libcapture-tiny-perl libcgi-pm-perl
libcgi-session-perl libcommon-sense-perl libcroco3 libdata-stag-perl
libdbd-sqlite3-perl libdbi-perl libencode-locale-perl libexpat1
libexpat1-dev libexporter-tiny-perl libfile-listing-perl
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgd-perl
libgd3 libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl
libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu57 libio-html-perl
libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg62-turbo
libjs-prototype libjs-scriptaculous libjson-perl libldap-2.4-2
libldap-common libldap2-dev liblist-moreutils-perl liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic-mgc libmagic1 libmodule-build-perl
libnet-http-perl libnet-ssleay-perl libpipeline1 libsasl2-2
libsasl2-modules-db libsctp-dev libsctp1 libsigsegv2
libstatistics-descriptive-perl libstring-approx-perl libterm-readkey-perl
libtiff5 libtimedate-perl libtool liburi-perl libvm-ec2-perl libwebp6
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 m4
man-db netbase perl-openssl-defaults po-debconf rename sqlite3 ucf uuid-dev
Suggested packages:
autoconf-archive gnu-standards autoconf-doc wamerican | wordlist whois
vacation dh-make gettext-doc libasprintf-dev libgettextpo-dev groff
libev-perl libevent-perl libio-async-perl libpoe-perl libtask-weaken-perl
python libxml-sax-expatxs-perl libclone-perl libmldbm-perl
libnet-daemon-perl libsql-statement-perl libgd-tools libdata-dump-perl
libcrypt-ssleay-perl lksctp-tools libtool-doc gfortran | fortran95-compiler
gcj-jdk libauthen-ntlm-perl m4-doc less www-browser libmail-box-perl
sqlite3-doc
Recommended packages:
bioperl-run perl-doc libcache-cache-perl libbio-perl-run-perl
libapache-dbi-perl libyaml-perl libace-perl libxml-twig-perl
libset-scalar-perl curl | wget | lynx-cur libasync-interrupt-perl libev-perl
| libevent-perl libguard-perl libbio-scf-perl libgd-svg-perl bioperl-run
| libbio-perl-run-perl libalgorithm-munkres-perl libarray-compare-perl
libbio-asn1-entrezgene-perl libclone-perl libconvert-binary-c-perl
libdbd-mysql-perl libdbd-pg-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
libglib2.0-data shared-mime-info xdg-user-dirs libhtml-format-perl
javascript-common libjson-xs-perl libmodule-signature-perl
libpod-readme-perl libsoftware-license-perl libsasl2-modules libltdl-dev
libhtml-form-perl libmailtools-perl libxml-sax-expat-perl xml-core
libmail-sendmail-perl
The following NEW packages will be installed:
apache2-dev autoconf automake autopoint autotools-dev bioperl bsdmainutils
debhelper dh-autoreconf dh-exec dh-strip-nondeterminism file
fontconfig-config fonts-dejavu-core gettext gettext-base groff-base
intltool-debian libanyevent-cachedns-perl libanyevent-http-perl
libanyevent-perl libapr1 libapr1-dev libaprutil1 libaprutil1-dev
libarchive-zip-perl libbio-coordinate-perl libbio-graphics-perl
libbio-perl-perl libbsd0 libcapture-tiny-perl libcgi-pm-perl
libcgi-session-perl libcommon-sense-perl libcroco3 libdata-stag-perl
libdbd-sqlite3-perl libdbi-perl libencode-locale-perl libexpat1
libexpat1-dev libexporter-tiny-perl libfile-listing-perl
libfile-stripnondeterminism-perl libfontconfig1 libfreetype6 libgd-perl
libgd3 libglib2.0-0 libhtml-parser-perl libhtml-tagset-perl
libhtml-tree-perl libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu57 libio-html-perl
libio-socket-ssl-perl libio-string-perl libjbig0 libjpeg62-turbo
libjs-prototype libjs-scriptaculous libjson-perl libldap-2.4-2
libldap-common libldap2-dev liblist-moreutils-perl liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic-mgc libmagic1 libmodule-build-perl
libnet-http-perl libnet-ssleay-perl libpipeline1 libsasl2-2
libsasl2-modules-db libsctp-dev libsctp1 libsigsegv2
libstatistics-descriptive-perl libstring-approx-perl libterm-readkey-perl
libtiff5 libtimedate-perl libtool liburi-perl libvm-ec2-perl libwebp6
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 m4
man-db netbase perl-openssl-defaults po-debconf rename
sbuild-build-depends-gbrowse-dummy sqlite3 ucf uuid-dev
0 upgraded, 116 newly installed, 0 to remove and 5 not upgraded.
Need to get 37.4 MB of archives.
After this operation, 127 MB of additional disk space will be used.
Get:1 copy:/<<BUILDDIR>>/resolver-JEoIbh/apt_archive ./ sbuild-build-depends-gbrowse-dummy 0.invalid.0 [962 B]
Get:2 http://172.17.0.1/private buster-staging/main armhf groff-base armhf 1.22.3-9 [1005 kB]
Get:3 http://172.17.0.1/private buster-staging/main armhf libbsd0 armhf 0.8.6-1 [95.7 kB]
Get:4 http://172.17.0.1/private buster-staging/main armhf bsdmainutils armhf 9.0.12+nmu1 [178 kB]
Get:5 http://172.17.0.1/private buster-staging/main armhf libpipeline1 armhf 1.4.2-1 [24.2 kB]
Get:6 http://172.17.0.1/private buster-staging/main armhf man-db armhf 2.7.6.1-2 [1014 kB]
Get:7 http://172.17.0.1/private buster-staging/main armhf libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:8 http://172.17.0.1/private buster-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:9 http://172.17.0.1/private buster-staging/main armhf netbase all 5.4 [19.1 kB]
Get:10 http://172.17.0.1/private buster-staging/main armhf libmagic-mgc armhf 1:5.30-1 [222 kB]
Get:11 http://172.17.0.1/private buster-staging/main armhf libmagic1 armhf 1:5.30-1 [105 kB]
Get:12 http://172.17.0.1/private buster-staging/main armhf file armhf 1:5.30-1 [63.4 kB]
Get:13 http://172.17.0.1/private buster-staging/main armhf gettext-base armhf 0.19.8.1-2+b1 [117 kB]
Get:14 http://172.17.0.1/private buster-staging/main armhf libsasl2-modules-db armhf 2.1.27~101-g0780600+dfsg-3 [66.9 kB]
Get:15 http://172.17.0.1/private buster-staging/main armhf libsasl2-2 armhf 2.1.27~101-g0780600+dfsg-3 [98.1 kB]
Get:16 http://172.17.0.1/private buster-staging/main armhf libldap-common all 2.4.45+dfsg-1 [87.0 kB]
Get:17 http://172.17.0.1/private buster-staging/main armhf libldap-2.4-2 armhf 2.4.45+dfsg-1 [197 kB]
Get:18 http://172.17.0.1/private buster-staging/main armhf libicu57 armhf 57.1-6 [7427 kB]
Get:19 http://172.17.0.1/private buster-staging/main armhf libxml2 armhf 2.9.4+dfsg1-3 [601 kB]
Get:20 http://172.17.0.1/private buster-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:21 http://172.17.0.1/private buster-staging/main armhf libapr1 armhf 1.5.2-5 [79.8 kB]
Get:22 http://172.17.0.1/private buster-staging/main armhf uuid-dev armhf 2.29.2-2+rpi1 [83.4 kB]
Get:23 http://172.17.0.1/private buster-staging/main armhf libsctp1 armhf 1.0.17+dfsg-1 [27.3 kB]
Get:24 http://172.17.0.1/private buster-staging/main armhf libsctp-dev armhf 1.0.17+dfsg-1 [82.6 kB]
Get:25 http://172.17.0.1/private buster-staging/main armhf libapr1-dev armhf 1.5.2-5 [659 kB]
Get:26 http://172.17.0.1/private buster-staging/main armhf libexpat1 armhf 2.2.2-2 [66.3 kB]
Get:27 http://172.17.0.1/private buster-staging/main armhf libaprutil1 armhf 1.5.4-3 [75.9 kB]
Get:28 http://172.17.0.1/private buster-staging/main armhf libldap2-dev armhf 2.4.45+dfsg-1 [297 kB]
Get:29 http://172.17.0.1/private buster-staging/main armhf libexpat1-dev armhf 2.2.2-2 [121 kB]
Get:30 http://172.17.0.1/private buster-staging/main armhf libaprutil1-dev armhf 1.5.4-3 [371 kB]
Get:31 http://172.17.0.1/private buster-staging/main armhf autotools-dev all 20161112.1 [73.4 kB]
Get:32 http://172.17.0.1/private buster-staging/main armhf libsigsegv2 armhf 2.11-1 [29.3 kB]
Get:33 http://172.17.0.1/private buster-staging/main armhf m4 armhf 1.4.18-1 [185 kB]
Get:34 http://172.17.0.1/private buster-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:35 http://172.17.0.1/private buster-staging/main armhf automake all 1:1.15.1-2 [736 kB]
Get:36 http://172.17.0.1/private buster-staging/main armhf autopoint all 0.19.8.1-2 [433 kB]
Get:37 http://172.17.0.1/private buster-staging/main armhf libtool all 2.4.6-2 [545 kB]
Get:38 http://172.17.0.1/private buster-staging/main armhf dh-autoreconf all 14 [15.9 kB]
Get:39 http://172.17.0.1/private buster-staging/main armhf libarchive-zip-perl all 1.59-1 [95.5 kB]
Get:40 http://172.17.0.1/private buster-staging/main armhf libfile-stripnondeterminism-perl all 0.038-1 [17.6 kB]
Get:41 http://172.17.0.1/private buster-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:42 http://172.17.0.1/private buster-staging/main armhf dh-strip-nondeterminism all 0.038-1 [11.1 kB]
Get:43 http://172.17.0.1/private buster-staging/main armhf libglib2.0-0 armhf 2.52.3-1 [2576 kB]
Get:44 http://172.17.0.1/private buster-staging/main armhf libcroco3 armhf 0.6.12-1 [132 kB]
Get:45 http://172.17.0.1/private buster-staging/main armhf gettext armhf 0.19.8.1-2+b1 [1220 kB]
Get:46 http://172.17.0.1/private buster-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:47 http://172.17.0.1/private buster-staging/main armhf po-debconf all 1.0.20 [247 kB]
Get:48 http://172.17.0.1/private buster-staging/main armhf debhelper all 10.6.4 [970 kB]
Get:49 http://172.17.0.1/private buster-staging/main armhf apache2-dev armhf 2.4.27-2 [317 kB]
Get:50 http://172.17.0.1/private buster-staging/main armhf libio-string-perl all 1.08-3 [12.3 kB]
Get:51 http://172.17.0.1/private buster-staging/main armhf libdata-stag-perl all 0.14-2 [448 kB]
Get:52 http://172.17.0.1/private buster-staging/main armhf libbio-perl-perl all 1.7.1-2 [4605 kB]
Get:53 http://172.17.0.1/private buster-staging/main armhf bioperl all 1.7.1-2 [422 kB]
Get:54 http://172.17.0.1/private buster-staging/main armhf fonts-dejavu-core all 2.37-1 [1068 kB]
Get:55 http://172.17.0.1/private buster-staging/main armhf fontconfig-config all 2.12.3-0.2 [304 kB]
Get:56 http://172.17.0.1/private buster-staging/main armhf libanyevent-perl armhf 7.130-2+b1 [391 kB]
Get:57 http://172.17.0.1/private buster-staging/main armhf libanyevent-cachedns-perl all 0.08-2 [7150 B]
Get:58 http://172.17.0.1/private buster-staging/main armhf libcommon-sense-perl armhf 3.74-2+b1 [23.9 kB]
Get:59 http://172.17.0.1/private buster-staging/main armhf libanyevent-http-perl all 2.23-1 [34.6 kB]
Get:60 http://172.17.0.1/private buster-staging/main armhf libbio-coordinate-perl all 1.7.1-1 [56.0 kB]
Get:61 http://172.17.0.1/private buster-staging/main armhf libfreetype6 armhf 2.8-0.2 [393 kB]
Get:62 http://172.17.0.1/private buster-staging/main armhf libfontconfig1 armhf 2.12.3-0.2 [349 kB]
Get:63 http://172.17.0.1/private buster-staging/main armhf libjpeg62-turbo armhf 1:1.5.1-2 [109 kB]
Get:64 http://172.17.0.1/private buster-staging/main armhf libtiff5 armhf 4.0.8-4 [219 kB]
Get:65 http://172.17.0.1/private buster-staging/main armhf libwebp6 armhf 0.5.2-1 [202 kB]
Get:66 http://172.17.0.1/private buster-staging/main armhf libxdmcp6 armhf 1:1.1.2-3 [25.0 kB]
Get:67 http://172.17.0.1/private buster-staging/main armhf libxcb1 armhf 1.12-1 [129 kB]
Get:68 http://172.17.0.1/private buster-staging/main armhf libx11-data all 2:1.6.4-3 [290 kB]
Get:69 http://172.17.0.1/private buster-staging/main armhf libx11-6 armhf 2:1.6.4-3 [683 kB]
Get:70 http://172.17.0.1/private buster-staging/main armhf libxpm4 armhf 1:3.5.12-1 [43.6 kB]
Get:71 http://172.17.0.1/private buster-staging/main armhf libgd3 armhf 2.2.4-2 [113 kB]
Get:72 http://172.17.0.1/private buster-staging/main armhf libgd-perl armhf 2.66-1+b1 [173 kB]
Get:73 http://172.17.0.1/private buster-staging/main armhf libbio-graphics-perl all 2.40-1 [611 kB]
Get:74 http://172.17.0.1/private buster-staging/main armhf libcapture-tiny-perl all 0.46-1 [25.7 kB]
Get:75 http://172.17.0.1/private buster-staging/main armhf libhtml-tagset-perl all 3.20-3 [12.7 kB]
Get:76 http://172.17.0.1/private buster-staging/main armhf liburi-perl all 1.71-1 [88.6 kB]
Get:77 http://172.17.0.1/private buster-staging/main armhf libhtml-parser-perl armhf 3.72-3+b1 [101 kB]
Get:78 http://172.17.0.1/private buster-staging/main armhf libcgi-pm-perl all 4.36-1 [222 kB]
Get:79 http://172.17.0.1/private buster-staging/main armhf libcgi-session-perl all 4.48-3 [119 kB]
Get:80 http://172.17.0.1/private buster-staging/main armhf libdbi-perl armhf 1.636-1+b2 [759 kB]
Get:81 http://172.17.0.1/private buster-staging/main armhf libdbd-sqlite3-perl armhf 1.54-1+b1 [157 kB]
Get:82 http://172.17.0.1/private buster-staging/main armhf libencode-locale-perl all 1.05-1 [13.7 kB]
Get:83 http://172.17.0.1/private buster-staging/main armhf libexporter-tiny-perl all 0.042-1 [32.4 kB]
Get:84 http://172.17.0.1/private buster-staging/main armhf libhttp-date-perl all 6.02-1 [10.7 kB]
Get:85 http://172.17.0.1/private buster-staging/main armhf libfile-listing-perl all 6.04-1 [10.3 kB]
Get:86 http://172.17.0.1/private buster-staging/main armhf libhtml-tree-perl all 5.03-2 [210 kB]
Get:87 http://172.17.0.1/private buster-staging/main armhf libio-html-perl all 1.001-1 [17.6 kB]
Get:88 http://172.17.0.1/private buster-staging/main armhf liblwp-mediatypes-perl all 6.02-1 [22.1 kB]
Get:89 http://172.17.0.1/private buster-staging/main armhf libhttp-message-perl all 6.11-1 [75.9 kB]
Get:90 http://172.17.0.1/private buster-staging/main armhf libhttp-cookies-perl all 6.01-1 [17.4 kB]
Get:91 http://172.17.0.1/private buster-staging/main armhf libhttp-daemon-perl all 6.01-1 [17.3 kB]
Get:92 http://172.17.0.1/private buster-staging/main armhf libhttp-negotiate-perl all 6.00-2 [13.6 kB]
Get:93 http://172.17.0.1/private buster-staging/main armhf perl-openssl-defaults armhf 3 [6782 B]
Get:94 http://172.17.0.1/private buster-staging/main armhf libnet-ssleay-perl armhf 1.80-1+b1 [270 kB]
Get:95 http://172.17.0.1/private buster-staging/main armhf libio-socket-ssl-perl all 2.049-1 [201 kB]
Get:96 http://172.17.0.1/private buster-staging/main armhf libjs-prototype all 1.7.1-3 [44.3 kB]
Get:97 http://172.17.0.1/private buster-staging/main armhf libjs-scriptaculous all 1.9.0-2 [129 kB]
Get:98 http://172.17.0.1/private buster-staging/main armhf libjson-perl all 2.94-1 [80.2 kB]
Get:99 http://172.17.0.1/private buster-staging/main armhf liblist-moreutils-perl armhf 0.416-1+b2 [59.2 kB]
Get:100 http://172.17.0.1/private buster-staging/main armhf libnet-http-perl all 6.12-1 [23.8 kB]
Get:101 http://172.17.0.1/private buster-staging/main armhf libwww-robotrules-perl all 6.01-1 [14.3 kB]
Get:102 http://172.17.0.1/private buster-staging/main armhf libwww-perl all 6.15-1 [195 kB]
Get:103 http://172.17.0.1/private buster-staging/main armhf liblwp-protocol-https-perl all 6.07-1 [9156 B]
Get:104 http://172.17.0.1/private buster-staging/main armhf libmodule-build-perl all 0.422400-1 [259 kB]
Get:105 http://172.17.0.1/private buster-staging/main armhf libstatistics-descriptive-perl all 3.0612-1 [41.9 kB]
Get:106 http://172.17.0.1/private buster-staging/main armhf libstring-approx-perl armhf 3.27-1+b5 [38.2 kB]
Get:107 http://172.17.0.1/private buster-staging/main armhf libterm-readkey-perl armhf 2.37-1+b1 [26.6 kB]
Get:108 http://172.17.0.1/private buster-staging/main armhf libxml-namespacesupport-perl all 1.11-1 [14.8 kB]
Get:109 http://172.17.0.1/private buster-staging/main armhf libxml-sax-base-perl all 1.07-1 [23.1 kB]
Get:110 http://172.17.0.1/private buster-staging/main armhf libxml-sax-perl all 0.99+dfsg-2 [68.3 kB]
Get:111 http://172.17.0.1/private buster-staging/main armhf libxml-libxml-perl armhf 2.0128+dfsg-1+b2 [319 kB]
Get:112 http://172.17.0.1/private buster-staging/main armhf libxml-simple-perl all 2.22-1 [71.8 kB]
Get:113 http://172.17.0.1/private buster-staging/main armhf libvm-ec2-perl all 1.28-2 [768 kB]
Get:114 http://172.17.0.1/private buster-staging/main armhf rename all 0.20-4 [12.5 kB]
Get:115 http://172.17.0.1/private buster-staging/main armhf sqlite3 armhf 3.19.3-3 [731 kB]
Get:116 http://172.17.0.1/private buster-staging/main armhf dh-exec armhf 0.23 [24.9 kB]
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Selecting previously unselected package libnet-http-perl.
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Unpacking libnet-http-perl (6.12-1) ...
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Unpacking libwww-perl (6.15-1) ...
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Unpacking liblwp-protocol-https-perl (6.07-1) ...
Selecting previously unselected package libmodule-build-perl.
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Adding 'diversion of /usr/bin/config_data to /usr/bin/config_data.diverted by libmodule-build-perl'
Adding 'diversion of /usr/share/man/man1/config_data.1.gz to /usr/share/man/man1/config_data.diverted.1.gz by libmodule-build-perl'
Unpacking libmodule-build-perl (0.422400-1) ...
Selecting previously unselected package libstatistics-descriptive-perl.
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Unpacking libstatistics-descriptive-perl (3.0612-1) ...
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Unpacking libstring-approx-perl (3.27-1+b5) ...
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Unpacking libterm-readkey-perl (2.37-1+b1) ...
Selecting previously unselected package libxml-namespacesupport-perl.
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Unpacking libxml-namespacesupport-perl (1.11-1) ...
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Unpacking libxml-simple-perl (2.22-1) ...
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Unpacking libvm-ec2-perl (1.28-2) ...
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Unpacking rename (0.20-4) ...
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Unpacking sqlite3 (3.19.3-3) ...
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Unpacking dh-exec (0.23) ...
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Unpacking sbuild-build-depends-gbrowse-dummy (0.invalid.0) ...
Setting up libhtml-tagset-perl (3.20-3) ...
Setting up libapr1:armhf (1.5.2-5) ...
Setting up libcommon-sense-perl (3.74-2+b1) ...
Setting up libexpat1:armhf (2.2.2-2) ...
Setting up libjpeg62-turbo:armhf (1:1.5.1-2) ...
Setting up libarchive-zip-perl (1.59-1) ...
Setting up libxml-namespacesupport-perl (1.11-1) ...
Setting up libanyevent-perl (7.130-2+b1) ...
Setting up libsctp1:armhf (1.0.17+dfsg-1) ...
Setting up libencode-locale-perl (1.05-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up libjbig0:armhf (2.1-3.1) ...
Setting up libsigsegv2:armhf (2.11-1) ...
Setting up rename (0.20-4) ...
update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode
Setting up libldap-common (2.4.45+dfsg-1) ...
Setting up fonts-dejavu-core (2.37-1) ...
Setting up perl-openssl-defaults:armhf (3) ...
Setting up groff-base (1.22.3-9) ...
Setting up libglib2.0-0:armhf (2.52.3-1) ...
No schema files found: doing nothing.
Setting up libcapture-tiny-perl (0.46-1) ...
Setting up libio-html-perl (1.001-1) ...
Setting up libexporter-tiny-perl (0.042-1) ...
Setting up libsasl2-modules-db:armhf (2.1.27~101-g0780600+dfsg-3) ...
Setting up libsasl2-2:armhf (2.1.27~101-g0780600+dfsg-3) ...
Setting up uuid-dev:armhf (2.29.2-2+rpi1) ...
Setting up libtiff5:armhf (4.0.8-4) ...
Setting up gettext-base (0.19.8.1-2+b1) ...
Setting up libpipeline1:armhf (1.4.2-1) ...
Setting up m4 (1.4.18-1) ...
Setting up libicu57:armhf (57.1-6) ...
Setting up libbsd0:armhf (0.8.6-1) ...
Setting up ucf (3.0036) ...
Setting up libxml2:armhf (2.9.4+dfsg1-3) ...
Setting up sqlite3 (3.19.3-3) ...
Setting up libterm-readkey-perl (2.37-1+b1) ...
Setting up libfreetype6:armhf (2.8-0.2) ...
Setting up libmagic-mgc (1:5.30-1) ...
Setting up libmagic1:armhf (1:5.30-1) ...
Setting up libcroco3:armhf (0.6.12-1) ...
Setting up libxml-sax-base-perl (1.07-1) ...
Setting up liblwp-mediatypes-perl (6.02-1) ...
Processing triggers for libc-bin (2.24-12) ...
Setting up autotools-dev (20161112.1) ...
Setting up libldap-2.4-2:armhf (2.4.45+dfsg-1) ...
Setting up liburi-perl (1.71-1) ...
Setting up libanyevent-http-perl (2.23-1) ...
Setting up libaprutil1:armhf (1.5.4-3) ...
Setting up libhtml-parser-perl (3.72-3+b1) ...
Setting up libcgi-pm-perl (4.36-1) ...
Setting up libio-string-perl (1.08-3) ...
Setting up libexpat1-dev:armhf (2.2.2-2) ...
Setting up libnet-http-perl (6.12-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-3) ...
Setting up bsdmainutils (9.0.12+nmu1) ...
update-alternatives: using /usr/bin/bsd-write to provide /usr/bin/write (write) in auto mode
update-alternatives: using /usr/bin/bsd-from to provide /usr/bin/from (from) in auto mode
Setting up libmodule-build-perl (0.422400-1) ...
Setting up libstring-approx-perl (3.27-1+b5) ...
Setting up libjson-perl (2.94-1) ...
Setting up libjs-prototype (1.7.1-3) ...
Setting up libwww-robotrules-perl (6.01-1) ...
Setting up libdbi-perl (1.636-1+b2) ...
Setting up libx11-data (2:1.6.4-3) ...
Setting up libdata-stag-perl (0.14-2) ...
Setting up libxau6:armhf (1:1.0.8-1) ...
Setting up autopoint (0.19.8.1-2) ...
Setting up libanyevent-cachedns-perl (0.08-2) ...
Setting up netbase (5.4) ...
Setting up libwebp6:armhf (0.5.2-1) ...
Setting up libfile-stripnondeterminism-perl (0.038-1) ...
Setting up libxml-sax-perl (0.99+dfsg-2) ...
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 liblist-moreutils-perl (0.416-1+b2) ...
Setting up libldap2-dev:armhf (2.4.45+dfsg-1) ...
Setting up libsctp-dev (1.0.17+dfsg-1) ...
Setting up libstatistics-descriptive-perl (3.0612-1) ...
Setting up fontconfig-config (2.12.3-0.2) ...
Setting up libhttp-date-perl (6.02-1) ...
Setting up libcgi-session-perl (4.48-3) ...
Setting up libapr1-dev (1.5.2-5) ...
Setting up libdbd-sqlite3-perl (1.54-1+b1) ...
Setting up libbio-perl-perl (1.7.1-2) ...
Setting up gettext (0.19.8.1-2+b1) ...
Setting up libnet-ssleay-perl (1.80-1+b1) ...
Setting up libaprutil1-dev (1.5.4-3) ...
Setting up autoconf (2.69-10) ...
Setting up libjs-scriptaculous (1.9.0-2) ...
Setting up file (1:5.30-1) ...
Setting up libio-socket-ssl-perl (2.049-1) ...
Setting up libhtml-tree-perl (5.03-2) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up automake (1:1.15.1-2) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up bioperl (1.7.1-2) ...
Setting up libfile-listing-perl (6.04-1) ...
Setting up man-db (2.7.6.1-2) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libhttp-message-perl (6.11-1) ...
Setting up libxml-libxml-perl (2.0128+dfsg-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 libxcb1:armhf (1.12-1) ...
Setting up libhttp-negotiate-perl (6.00-2) ...
Setting up libtool (2.4.6-2) ...
Setting up libfontconfig1:armhf (2.12.3-0.2) ...
Setting up po-debconf (1.0.20) ...
Setting up libhttp-cookies-perl (6.01-1) ...
Setting up libx11-6:armhf (2:1.6.4-3) ...
Setting up libhttp-daemon-perl (6.01-1) ...
Setting up libbio-coordinate-perl (1.7.1-1) ...
Setting up libxml-simple-perl (2.22-1) ...
Setting up libxpm4:armhf (1:3.5.12-1) ...
Setting up libgd3:armhf (2.2.4-2) ...
Setting up libgd-perl (2.66-1+b1) ...
Setting up libbio-graphics-perl (2.40-1) ...
Setting up libwww-perl (6.15-1) ...
Setting up dh-autoreconf (14) ...
Setting up libvm-ec2-perl (1.28-2) ...
Setting up liblwp-protocol-https-perl (6.07-1) ...
Setting up dh-strip-nondeterminism (0.038-1) ...
Setting up debhelper (10.6.4) ...
Setting up dh-exec (0.23) ...
Setting up apache2-dev (2.4.27-2) ...
Setting up sbuild-build-depends-gbrowse-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.24-12) ...
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.4.0-79-generic armhf (armv8l)
Toolchain package versions: binutils_2.28-6 dpkg-dev_1.18.24 g++-6_6.4.0-1+rpi1 gcc-6_6.4.0-1+rpi1 libc6-dev_2.24-12 libstdc++-6-dev_6.4.0-1+rpi1 libstdc++6_7.1.0-9+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.115 apache2-dev_2.4.27-2 apt_1.5~beta1+b3 autoconf_2.69-10 automake_1:1.15.1-2 autopoint_0.19.8.1-2 autotools-dev_20161112.1 base-files_10+rpi1 base-passwd_3.5.43 bash_4.4-5 binutils_2.28-6 bioperl_1.7.1-2 bsdmainutils_9.0.12+nmu1 bsdutils_1:2.29.2-2+rpi1 build-essential_12.3 bzip2_1.0.6-8.1 ca-certificates_20161130+nmu1 coreutils_8.26-3 cpio_2.11+dfsg-6 cpp_4:6.3.0-4d1 cpp-6_6.4.0-1+rpi1 dash_0.5.8-2.5 debconf_1.5.63 debhelper_10.6.4 debianutils_4.8.1.1 dh-autoreconf_14 dh-exec_0.23 dh-strip-nondeterminism_0.038-1 diffutils_1:3.5-3 dmsetup_2:1.02.137-2 dpkg_1.18.24 dpkg-dev_1.18.24 e2fslibs_1.43.4-2 e2fsprogs_1.43.4-2 fakeroot_1.21-3.1 file_1:5.30-1 findutils_4.6.0+git+20170606-3 fontconfig-config_2.12.3-0.2 fonts-dejavu-core_2.37-1 g++_4:6.3.0-4d1 g++-6_6.4.0-1+rpi1 gcc_4:6.3.0-4d1 gcc-4.6-base_4.6.4-5+rpi1 gcc-4.7-base_4.7.3-11+rpi1 gcc-4.8-base_4.8.5-4 gcc-4.9-base_4.9.3-14 gcc-5-base_5.4.1-4 gcc-6_6.4.0-1+rpi1 gcc-6-base_6.4.0-1+rpi1 gcc-7-base_7.1.0-9+rpi1 gettext_0.19.8.1-2+b1 gettext-base_0.19.8.1-2+b1 gnupg_2.1.18-8 gnupg-agent_2.1.18-8 gpgv_2.1.18-8 grep_3.1-2 groff-base_1.22.3-9 gzip_1.6-5 hostname_3.18 init-system-helpers_1.48 initramfs-tools_0.130 initramfs-tools-core_0.130 intltool-debian_0.35.0+20060710.4 klibc-utils_2.0.4-9+rpi1 kmod_24-1 libacl1_2.2.52-3 libanyevent-cachedns-perl_0.08-2 libanyevent-http-perl_2.23-1 libanyevent-perl_7.130-2+b1 libapparmor1_2.11.0-6 libapr1_1.5.2-5 libapr1-dev_1.5.2-5 libaprutil1_1.5.4-3 libaprutil1-dev_1.5.4-3 libapt-pkg5.0_1.5~beta1+b3 libarchive-zip-perl_1.59-1 libasan3_6.4.0-1+rpi1 libassuan0_2.4.3-2 libatomic1_7.1.0-9+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.7.7-1 libaudit1_1:2.7.7-1 libbio-coordinate-perl_1.7.1-1 libbio-graphics-perl_2.40-1 libbio-perl-perl_1.7.1-2 libblkid1_2.29.2-2+rpi1 libbsd0_0.8.6-1 libbz2-1.0_1.0.6-8.1 libc-bin_2.24-12 libc-dev-bin_2.24-12 libc6_2.24-12 libc6-dev_2.24-12 libcap-ng0_0.7.7-3 libcap2_1:2.25-1 libcapture-tiny-perl_0.46-1 libcc1-0_7.1.0-9+rpi1 libcgi-pm-perl_4.36-1 libcgi-session-perl_4.48-3 libcomerr2_1.43.4-2 libcommon-sense-perl_3.74-2+b1 libcroco3_0.6.12-1 libcryptsetup4_2:1.7.3-4 libdata-stag-perl_0.14-2 libdb5.3_5.3.28-12 libdbd-sqlite3-perl_1.54-1+b1 libdbi-perl_1.636-1+b2 libdbus-1-3_1.10.20-1 libdebconfclient0_0.229 libdevmapper1.02.1_2:1.02.137-2 libdpkg-perl_1.18.24 libdrm2_2.4.81-2+rpi1 libencode-locale-perl_1.05-1 libexpat1_2.2.2-2 libexpat1-dev_2.2.2-2 libexporter-tiny-perl_0.042-1 libfakeroot_1.21-3.1 libfdisk1_2.29.2-2+rpi1 libffi6_3.2.1-6 libfile-listing-perl_6.04-1 libfile-stripnondeterminism-perl_0.038-1 libfontconfig1_2.12.3-0.2 libfreetype6_2.8-0.2 libgcc-6-dev_6.4.0-1+rpi1 libgcc1_1:7.1.0-9+rpi1 libgcrypt20_1.7.8-2 libgd-perl_2.66-1+b1 libgd3_2.2.4-2 libgdbm3_1.8.3-14 libglib2.0-0_2.52.3-1 libgmp10_2:6.1.2+dfsg-1 libgnutls30_3.5.14-2 libgomp1_7.1.0-9+rpi1 libgpg-error0_1.27-3 libhogweed4_3.3-1 libhtml-parser-perl_3.72-3+b1 libhtml-tagset-perl_3.20-3 libhtml-tree-perl_5.03-2 libhttp-cookies-perl_6.01-1 libhttp-daemon-perl_6.01-1 libhttp-date-perl_6.02-1 libhttp-message-perl_6.11-1 libhttp-negotiate-perl_6.00-2 libicu57_57.1-6 libidn11_1.33-1 libidn2-0_2.0.2-1 libio-html-perl_1.001-1 libio-socket-ssl-perl_2.049-1 libio-string-perl_1.08-3 libip4tc0_1.6.1-2 libisl15_0.18-1 libjbig0_2.1-3.1 libjpeg62-turbo_1:1.5.1-2 libjs-prototype_1.7.1-3 libjs-scriptaculous_1.9.0-2 libjson-perl_2.94-1 libklibc_2.0.4-9+rpi1 libkmod2_24-1 libksba8_1.3.5-2 libldap-2.4-2_2.4.45+dfsg-1 libldap-common_2.4.45+dfsg-1 libldap2-dev_2.4.45+dfsg-1 liblist-moreutils-perl_0.416-1+b2 liblwp-mediatypes-perl_6.02-1 liblwp-protocol-https-perl_6.07-1 liblz4-1_0.0~r131-2 liblzma5_5.2.2-1.3 libmagic-mgc_1:5.30-1 libmagic1_1:5.30-1 libmodule-build-perl_0.422400-1 libmount1_2.29.2-2+rpi1 libmpc3_1.0.3-1 libmpfr4_3.1.5-1 libncurses5_6.0+20170715-2 libncursesw5_6.0+20170715-2 libnet-http-perl_6.12-1 libnet-ssleay-perl_1.80-1+b1 libnettle6_3.3-1 libnih-dbus1_1.0.3-8 libnih1_1.0.3-8 libnpth0_1.5-2 libp11-kit0_0.23.7-3 libpam-modules_1.1.8-3.6 libpam-modules-bin_1.1.8-3.6 libpam-runtime_1.1.8-3.6 libpam0g_1.1.8-3.6 libpcre3_2:8.39-3 libperl5.24_5.24.1-7 libperl5.26_5.26.0-4 libpipeline1_1.4.2-1 libplymouth4_0.9.2-4 libpng16-16_1.6.30-2 libprocps6_2:3.3.12-3 libreadline5_5.2+dfsg-3 libreadline7_7.0-3 libsasl2-2_2.1.27~101-g0780600+dfsg-3 libsasl2-modules-db_2.1.27~101-g0780600+dfsg-3 libsctp-dev_1.0.17+dfsg-1 libsctp1_1.0.17+dfsg-1 libseccomp2_2.3.1-2.1 libselinux1_2.6-3 libsemanage-common_2.6-2 libsemanage1_2.6-2 libsepol1_2.6-2 libsigsegv2_2.11-1 libsmartcols1_2.29.2-2+rpi1 libsqlite3-0_3.19.3-3 libss2_1.43.4-2 libssl1.1_1.1.0f-3 libstatistics-descriptive-perl_3.0612-1 libstdc++-6-dev_6.4.0-1+rpi1 libstdc++6_7.1.0-9+rpi1 libstring-approx-perl_3.27-1+b5 libsystemd0_233-10 libtasn1-6_4.12-2 libterm-readkey-perl_2.37-1+b1 libtiff5_4.0.8-4 libtimedate-perl_2.3000-2 libtinfo5_6.0+20170715-2 libtool_2.4.6-2 libubsan0_7.1.0-9+rpi1 libudev1_233-10 libunistring2_0.9.7-2 liburi-perl_1.71-1 libustr-1.0-1_1.0.4-6 libuuid1_2.29.2-2+rpi1 libvm-ec2-perl_1.28-2 libwebp6_0.5.2-1 libwww-perl_6.15-1 libwww-robotrules-perl_6.01-1 libx11-6_2:1.6.4-3 libx11-data_2:1.6.4-3 libxau6_1:1.0.8-1 libxcb1_1.12-1 libxdmcp6_1:1.1.2-3 libxml-libxml-perl_2.0128+dfsg-1+b2 libxml-namespacesupport-perl_1.11-1 libxml-sax-base-perl_1.07-1 libxml-sax-perl_0.99+dfsg-2 libxml-simple-perl_2.22-1 libxml2_2.9.4+dfsg1-3 libxpm4_1:3.5.12-1 linux-base_4.5 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.4-4.1 lsb-base_9.20161125+rpi1 m4_1.4.18-1 make_4.1-9.1 makedev_2.3.1-93 man-db_2.7.6.1-2 mawk_1.3.3-17 mount_2.29.2-2+rpi1 mountall_2.54 multiarch-support_2.24-12 ncurses-base_6.0+20170715-2 ncurses-bin_6.0+20170715-2 netbase_5.4 openssl_1.1.0f-3 passwd_1:4.4-4.1 patch_2.7.5-1 perl_5.26.0-4 perl-base_5.26.0-4 perl-modules-5.24_5.24.1-7 perl-modules-5.26_5.26.0-4 perl-openssl-defaults_3 pinentry-curses_1.0.0-2 plymouth_0.9.2-4 po-debconf_1.0.20 procps_2:3.3.12-3 raspbian-archive-keyring_20120528.2 readline-common_7.0-3 rename_0.20-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-gbrowse-dummy_0.invalid.0 sed_4.4-1 sensible-utils_0.0.9+nmu1 sqlite3_3.19.3-3 systemd_233-10 sysvinit-utils_2.88dsf-59.9 tar_1.29b-2 tzdata_2017b-2 ucf_3.0036 udev_233-10 util-linux_2.29.2-2+rpi1 uuid-dev_2.29.2-2+rpi1 xz-utils_5.2.2-1.3 zlib1g_1:1.2.8.dfsg-5
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: unknown type of key resource 'trustedkeys.kbx'
gpgv: keyblock resource '/sbuild-nonexistent/.gnupg/trustedkeys.kbx': General error
gpgv: Signature made Fri Jan 20 20:22:33 2017 UTC
gpgv: using RSA key F1F007320A035541F0A663CA578A0494D1C646D1
gpgv: issuer "tille@debian.org"
gpgv: Can't check signature: No public key
dpkg-source: warning: failed to verify signature on ./gbrowse_2.56+dfsg-2.dsc
dpkg-source: info: extracting gbrowse in /<<BUILDDIR>>/gbrowse-2.56+dfsg
dpkg-source: info: unpacking gbrowse_2.56+dfsg.orig.tar.gz
dpkg-source: info: unpacking gbrowse_2.56+dfsg-2.debian.tar.xz
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
Check disk space
----------------
Sufficient free space for build
Hack binNMU version
-------------------
Created changelog entry for binNMU version 2.56+dfsg-2+b1
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LC_ALL=POSIX
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=buster-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=buster-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=112
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=buster-staging-armhf-sbuild-4f4bb612-5714-4d60-9d97-356f4cc77e91
SCHROOT_UID=107
SCHROOT_USER=buildd
SHELL=/bin/sh
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package gbrowse
dpkg-buildpackage: info: source version 2.56+dfsg-2+b1
dpkg-buildpackage: info: source distribution buster-staging
dpkg-source --before-build gbrowse-2.56+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with apache2
dh_testdir
dh_auto_clean
dh_autoreconf_clean
dh_clean
debian/rules build-arch
dh build-arch --with apache2
dh_testdir -a
dh_update_autotools_config -a
dh_autoreconf -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
dh_auto_configure -- --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse
perl -I. Build.PL --installdirs vendor --config "optimize=-g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now" --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse
WARNING: the following files are missing in your kit:
contrib/ace2gff.pl
contrib/AxtPairwise_convert/axt2phy.pl
contrib/blast2gff.pl
contrib/conf_files/01.yeast.conf
contrib/conf_files/02.wormbase.conf
contrib/conf_files/03.fly.conf
contrib/conf_files/04.human.conf
contrib/conf_files/05.embl_proxy.conf
contrib/conf_files/06.biosql.conf
contrib/conf_files/07.chado.conf
contrib/conf_files/08.genbank.conf
contrib/conf_files/09.human_karyotype.conf
contrib/conf_files/index.html
contrib/conf_files/wormbase.syn
contrib/Coverage/INSTALL
contrib/Coverage/plugin/Coverage.pm
contrib/Coverage/README
contrib/gdump.pl
contrib/GeneFinder/genefinder/gfcode.c
contrib/GeneFinder/genefinder/README
contrib/GeneFinder/genefinder/readseq.c
contrib/GeneFinder/genefinder/readseq.h
contrib/GeneFinder/nematode_gftables/cds.hex
contrib/GeneFinder/nematode_gftables/gftables
contrib/GeneFinder/nematode_gftables/newnem.atg
contrib/GeneFinder/nematode_gftables/newnem.codon
contrib/GeneFinder/nematode_gftables/newnem.gene
contrib/GeneFinder/nematode_gftables/newnem.intron3
contrib/GeneFinder/nematode_gftables/newnem.intron5
contrib/GeneFinder/nematode_gftables/ref.hist
contrib/GeneFinder/nematode_gftables/zk637.atg
contrib/GeneFinder/nematode_gftables/zk637.intron3
contrib/GeneFinder/nematode_gftables/zk637.intron5
contrib/GeneFinder/nematode_gftables/zk637.trinuc
contrib/import_ncbi_mv_hs.pl
contrib/install_macosx/BuildConfig.pm
contrib/install_macosx/README.html
contrib/install_macosx/README.pod
contrib/install_macosx/scripts/build-gbrowse.pl
contrib/install_macosx/scripts/build-libraries.pl
contrib/README
contrib/SynView/cgi-lib/DAS/GUS.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment.pm
contrib/SynView/cgi-lib/DAS/GUS/Segment/Feature.pm
contrib/SynView/cgi-lib/DAS/Util/SqlParser.pm
contrib/SynView/gbrowse.conf/plasmodb.conf
contrib/SynView/gbrowse.conf/plasmodb.xml
contrib/SynView/MAL11/MAL11.conf
contrib/SynView/MAL11/MAL11.fa
contrib/SynView/MAL11/MAL11.gff3
contrib/SynView/README
contrib/TextDumper/README
contrib/TextDumper/TextDumper.pm
lib/Bio/DB/SeqFeature/Store/LoadHelper.pm
Please inform the author.
Checking prerequisites...
recommends:
* Bio::DB::BigFile is not installed
* Bio::DB::Sam is not installed
* Bio::Das is not installed
* Crypt::SSLeay is not installed
* DBD::Pg 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 '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
dh_auto_build -a
perl Build
NOTE: Run ./Build reconfig to change existing configuration.
Building GBrowse
arm-linux-gnueabihf-gcc -I/<<BUILDDIR>>/gbrowse-2.56+dfsg/libalign -I/usr/lib/arm-linux-gnueabihf/perl/5.26/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 -fdebug-prefix-map=/<<BUILDDIR>>/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2 -o lib/Bio/Graphics/Browser2/CAlign.o lib/Bio/Graphics/Browser2/CAlign.c
ExtUtils::Mkbootstrap::Mkbootstrap('blib/arch/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs')
arm-linux-gnueabihf-gcc -g -O2 -fdebug-prefix-map=/<<BUILDDIR>>/gbrowse-2.56+dfsg=. -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -Wl,-z,now -shared -L/usr/local/lib -fstack-protector-strong -o blib/arch/auto/Bio/Graphics/Browser2/CAlign/CAlign.so lib/Bio/Graphics/Browser2/CAlign.o
Performing variable substitutions in blib/conf/aws_balancer.conf
Performing variable substitutions in blib/conf/detail_select_menu.conf
Performing variable substitutions in blib/conf/enzymes.txt
Performing variable substitutions in blib/conf/GBrowse.conf
Performing variable substitutions in blib/conf/log4perl.conf
Performing variable substitutions in blib/conf/MobyServices/moby.conf
Performing variable substitutions in blib/conf/pop_demo.conf
Performing variable substitutions in blib/conf/renderfarm.conf
Performing variable substitutions in blib/conf/slave_preload.conf
Performing variable substitutions in blib/conf/submitter_plugin.conf
Performing variable substitutions in blib/conf/synteny/oryza.synconf.disabled.conf
Performing variable substitutions in blib/conf/synteny/rice_synteny.conf
Performing variable substitutions in blib/conf/synteny/wild_rice_synteny.conf
Performing variable substitutions in blib/conf/themes/solid_gray_colors
Performing variable substitutions in blib/conf/themes/transparent_colors
Performing variable substitutions in blib/conf/themes/warm_colors
Performing variable substitutions in blib/conf/volvox.conf
Performing variable substitutions in blib/conf/yeast_chr1+2.conf
Performing variable substitutions in blib/conf/yeast_renderfarm.conf
Performing variable substitutions in blib/conf/yeast_simple.conf
Performing variable substitutions in blib/htdocs/annotation_help.html
Performing variable substitutions in blib/htdocs/cloud_index.html
Performing variable substitutions in blib/htdocs/example_scripts/index.html
Performing variable substitutions in blib/htdocs/example_scripts/README
Performing variable substitutions in blib/htdocs/gbrowse_karyotype_help.html
Performing variable substitutions in blib/htdocs/gbrowse_syn_help.html
Performing variable substitutions in blib/htdocs/general_help.html
Performing variable substitutions in blib/htdocs/index.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_core.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/elegans_extra.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_final_withPhylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_halfway.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_Phylo.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_quarter.conf
Performing variable substitutions in blib/htdocs/tutorial/conf_files/volvox_refactored.conf
Performing variable substitutions in blib/htdocs/tutorial/data_files/HEADER.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.html
Performing variable substitutions in blib/htdocs/tutorial/tutorial.phyTreeEdit.html
Performing variable substitutions in blib/htdocs/vbox_index.html
Use of uninitialized value in pattern match (m//) at /<<BUILDDIR>>/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
dh_auto_test -- TEST_FILES="t/02.rearchitecture.t t/05.deferredrendering.t t/00.compile.t t/01.yeast.t t/07.balancer.t t/08.calign.t"
perl Build test --verbose 1 "TEST_FILES=t/02.rearchitecture.t t/05.deferredrendering.t t/00.compile.t t/01.yeast.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 /<<BUILDDIR>>/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
t/00.compile.t ............
ok 1 - cgi-bin/das compiled ok
ok 2 - cgi-bin/das stderr said "syntax OK"
ok 3 - cgi-bin/das nothing on stdout
ok 4 - cgi-bin/gbgff compiled ok
ok 5 - cgi-bin/gbgff stderr said "syntax OK"
ok 6 - cgi-bin/gbgff nothing on stdout
ok 7 - cgi-bin/gbrowse compiled ok
ok 8 - cgi-bin/gbrowse stderr said "syntax OK"
ok 9 - cgi-bin/gbrowse nothing on stdout
ok 10 - cgi-bin/gbrowse_details compiled ok
ok 11 - cgi-bin/gbrowse_details stderr said "syntax OK"
ok 12 - cgi-bin/gbrowse_details nothing on stdout
ok 13 # skip explicitly skipping cgi-bin/gbrowse_gmap
ok 14 - cgi-bin/gbrowse_img compiled ok
ok 15 - cgi-bin/gbrowse_img stderr said "syntax OK"
ok 16 - cgi-bin/gbrowse_img nothing on stdout
ok 17 - cgi-bin/gbrowse_key_img compiled ok
ok 18 - cgi-bin/gbrowse_key_img stderr said "syntax OK"
ok 19 - cgi-bin/gbrowse_key_img nothing on stdout
ok 20 - cgi-bin/gbrowse_login compiled ok
ok 21 - cgi-bin/gbrowse_login stderr said "syntax OK"
ok 22 - cgi-bin/gbrowse_login nothing on stdout
ok 23 - cgi-bin/gbrowse_syn compiled ok
ok 24 - cgi-bin/gbrowse_syn stderr said "syntax OK"
ok 25 - cgi-bin/gbrowse_syn nothing on stdout
ok 26 - bin/auto_install_databases.pl compiled ok
ok 27 - bin/auto_install_databases.pl stderr said "syntax OK"
ok 28 - bin/auto_install_databases.pl nothing on stdout
ok 29 - bin/bed2gff3.pl compiled ok
ok 30 - bin/bed2gff3.pl stderr said "syntax OK"
ok 31 - bin/bed2gff3.pl nothing on stdout
ok 32 - bin/bp_load_gff.pl compiled ok
ok 33 - bin/bp_load_gff.pl stderr said "syntax OK"
ok 34 - bin/bp_load_gff.pl nothing on stdout
ok 35 # skip explicitly skipping bin/gbrowse_aws_balancer.pl
ok 36 - bin/gbrowse_change_passwd.pl compiled ok
ok 37 - bin/gbrowse_change_passwd.pl stderr said "syntax OK"
ok 38 - bin/gbrowse_change_passwd.pl nothing on stdout
ok 39 - bin/gbrowse_clean.pl compiled ok
ok 40 - bin/gbrowse_clean.pl stderr said "syntax OK"
ok 41 - bin/gbrowse_clean.pl nothing on stdout
ok 42 - bin/gbrowse_configure_slaves.pl compiled ok
ok 43 - bin/gbrowse_configure_slaves.pl stderr said "syntax OK"
ok 44 - bin/gbrowse_configure_slaves.pl nothing on stdout
ok 45 - bin/gbrowse_create_account.pl compiled ok
ok 46 - bin/gbrowse_create_account.pl stderr said "syntax OK"
ok 47 - bin/gbrowse_create_account.pl nothing on stdout
ok 48 # skip explicitly skipping bin/gbrowse_grow_cloud_vol.pl
ok 49 - bin/gbrowse_import_ucsc_db.pl compiled ok
ok 50 - bin/gbrowse_import_ucsc_db.pl stderr said "syntax OK"
ok 51 - bin/gbrowse_import_ucsc_db.pl nothing on stdout
ok 52 - bin/gbrowse_metadb_config.pl compiled ok
ok 53 - bin/gbrowse_metadb_config.pl stderr said "syntax OK"
ok 54 - bin/gbrowse_metadb_config.pl nothing on stdout
ok 55 # skip explicitly skipping bin/gbrowse_netinstall.pl
ok 56 # skip explicitly skipping bin/gbrowse_netinstall2.pl
ok 57 - bin/gbrowse_set_admin_passwd.pl compiled ok
ok 58 - bin/gbrowse_set_admin_passwd.pl stderr said "syntax OK"
ok 59 - bin/gbrowse_set_admin_passwd.pl nothing on stdout
ok 60 - bin/gbrowse_slave compiled ok
ok 61 - bin/gbrowse_slave stderr said "syntax OK"
ok 62 - bin/gbrowse_slave nothing on stdout
ok 63 # skip explicitly skipping bin/gbrowse_slave_start_aws.sh
ok 64 - bin/gbrowse_syn_load_alignment_database.pl compiled ok
ok 65 - bin/gbrowse_syn_load_alignment_database.pl stderr said "syntax OK"
ok 66 - bin/gbrowse_syn_load_alignment_database.pl nothing on stdout
ok 67 - bin/gbrowse_syn_load_alignments_msa.pl compiled ok
ok 68 - bin/gbrowse_syn_load_alignments_msa.pl stderr said "syntax OK"
ok 69 - bin/gbrowse_syn_load_alignments_msa.pl nothing on stdout
ok 70 # skip explicitly skipping bin/gbrowse_sync_aws_slave.pl
ok 71 - bin/gtf2gff3.pl compiled ok
ok 72 - bin/gtf2gff3.pl stderr said "syntax OK"
ok 73 - bin/gtf2gff3.pl nothing on stdout
ok 74 - bin/load_genbank.pl compiled ok
ok 75 - bin/load_genbank.pl stderr said "syntax OK"
ok 76 - bin/load_genbank.pl nothing on stdout
ok 77 # skip explicitly skipping bin/make_das_conf.pl
ok 78 - bin/process_bamfiles.pl compiled ok
ok 79 - bin/process_bamfiles.pl stderr said "syntax OK"
ok 80 - bin/process_bamfiles.pl nothing on stdout
ok 81 - bin/process_gadfly.pl compiled ok
ok 82 - bin/process_gadfly.pl stderr said "syntax OK"
ok 83 - bin/process_gadfly.pl nothing on stdout
ok 84 - bin/process_ncbi_human.pl compiled ok
ok 85 - bin/process_ncbi_human.pl stderr said "syntax OK"
ok 86 - bin/process_ncbi_human.pl nothing on stdout
ok 87 - bin/process_sgd.pl compiled ok
ok 88 - bin/process_sgd.pl stderr said "syntax OK"
ok 89 - bin/process_sgd.pl nothing on stdout
ok 90 - bin/report_missing_language_tags.pl compiled ok
ok 91 - bin/report_missing_language_tags.pl stderr said "syntax OK"
ok 92 - bin/report_missing_language_tags.pl nothing on stdout
ok 93 - bin/scan_gbrowse.pl compiled ok
ok 94 - bin/scan_gbrowse.pl stderr said "syntax OK"
ok 95 - bin/scan_gbrowse.pl nothing on stdout
ok 96 - bin/split_wig.pl compiled ok
ok 97 - bin/split_wig.pl stderr said "syntax OK"
ok 98 - bin/split_wig.pl nothing on stdout
ok 99 - bin/ucsc_genes2gff.pl compiled ok
ok 100 - bin/ucsc_genes2gff.pl stderr said "syntax OK"
ok 101 - bin/ucsc_genes2gff.pl nothing on stdout
ok 102 - bin/wiggle2gff3.pl compiled ok
ok 103 - bin/wiggle2gff3.pl stderr said "syntax OK"
ok 104 - bin/wiggle2gff3.pl nothing on stdout
1..104
ok
t/01.yeast.t ..............
1..7
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
t/02.rearchitecture.t .....
1..90
ok 1
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ok
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
cannot remove directory for /tmp/gbrowse_testing/MIQamJj2BT: No such file or directory at t/03.render.t line 40.
t/03.render.t .............
1..150
ok 1
ok 2
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ok 4
ok 5
ok 6
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ok
Sometimes this test gets 'stuck'. If this happens, kill the test and Build test again.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
t/04.remoteserver.t .......
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File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
t/05.deferredrendering.t ..
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File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/DB/GFF.pm line 2000.
t/06.featuresearch.t ......
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t/07.balancer.t ........... skipped: Optional module Parse::Apache::ServerStatus not installed
File::Glob::glob() will disappear in perl 5.30. Use File::Glob::bsd_glob() instead. at /usr/share/perl5/Bio/Graphics/FeatureFile.pm line 756.
t/07.karyotype.t ..........
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t/08.calign.t .............
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# Running under perl version 5.026000 for linux
# Current time local: Sun Jul 30 05:02:29 2017
# Current time GMT: Sun Jul 30 05:02:29 2017
# Using Test.pm version 1.30
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All tests successful.
Files=10, Tests=448, 65 wallclock secs ( 0.18 usr 0.06 sys + 34.04 cusr 17.66 csys = 51.94 CPU)
Result: PASS
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary-arch
dh binary-arch --with apache2
dh_testroot -a
dh_prep -a
debian/rules override_dh_installdirs
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
# svn(-buildpackage) seems to ignore the x bit
chmod +x debian/gbrowse-calign.dirs
dh_installdirs
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
./Build --install_base=debian/gbrowse debianinstall
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /<<BUILDDIR>>/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 778.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
Installing debian/gbrowse/man/man1/bed2gff3.pl.1p
Installing debian/gbrowse/man/man1/load_genbank.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_aws_balancer.pl.1p
Installing debian/gbrowse/man/man1/ucsc_genes2gff.pl.1p
Installing debian/gbrowse/man/man1/make_das_conf.pl.1p
Installing debian/gbrowse/man/man1/wiggle2gff3.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/usr/lib/cgi-bin/gbrowse/gbrowse
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_syn
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_gmap
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_key_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/das
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_login
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_details
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbgff
Installing debian/gbrowse/etc/gbrowse/detail_select_menu.conf
Installing debian/gbrowse/etc/gbrowse/slave_preload.conf
Installing debian/gbrowse/etc/gbrowse/log4perl.conf
Installing debian/gbrowse/etc/gbrowse/enzymes.txt
Installing debian/gbrowse/etc/gbrowse/aws_balancer.conf
Installing debian/gbrowse/etc/gbrowse/renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/yeast_chr1+2.conf
Installing debian/gbrowse/etc/gbrowse/GBrowse.conf
Installing debian/gbrowse/etc/gbrowse/submitter_plugin.conf
Installing debian/gbrowse/etc/gbrowse/yeast_renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/pop_demo.conf
Installing debian/gbrowse/etc/gbrowse/volvox.conf
Installing debian/gbrowse/etc/gbrowse/yeast_simple.conf
Installing debian/gbrowse/etc/gbrowse/plugins/TrackDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PrimerDesigner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Blat.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SourceTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FilterTest.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AlignTwoSequences.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/GeneFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FBTableDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/ProteinDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CMapDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RestrictionAnnotator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PamAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestAuthenticator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SinWave.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FastaDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CreateBlastDB.pm
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Installing debian/gbrowse/etc/gbrowse/plugins/SimpleTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/OligoFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/LDAPAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/test.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Spectrogram.pm
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Installing debian/gbrowse/etc/gbrowse/plugins/RandomGene.pm
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Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_jpeg_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_gif_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_xml_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/moby.conf
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.PMS
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_formatted_renderer.pm
Installing debian/gbrowse/etc/gbrowse/languages/nl.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh_cn.pm
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Installing debian/gbrowse/etc/gbrowse/languages/en.pm
Installing debian/gbrowse/etc/gbrowse/themes/solid_gray_colors
Installing debian/gbrowse/etc/gbrowse/themes/warm_colors
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Installing debian/gbrowse/etc/gbrowse/synteny/oryza.synconf.disabled.conf
Installing debian/gbrowse/etc/gbrowse/synteny/wild_rice_synteny.conf
Installing debian/gbrowse/etc/gbrowse/synteny/rice_synteny.conf
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_chr1+2/yeast_chr1+2.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_chr1+2/dummy.fa
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/wild_rice/wild_rice.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/rice/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/yeast_scaffolds/chr2.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chromosomes.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr1.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/pop_demo/pop_demo.gff3
Installing debian/gbrowse/usr/share/gbrowse/htdocs/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gmod_cog.jpeg
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/vbox_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html.zh
Installing debian/gbrowse/usr/share/gbrowse/htdocs/annotation_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/cloud_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/tutorial.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/tutorial.phyTreeEdit.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/tutorial.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox6.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_core.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_acceptor.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox4b.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox_all.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox1.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox3.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox8.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox4.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_repeats.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_expression.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_sts.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_extra.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox9.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox2.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox4a.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/elegans_deletion.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox5.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/dbgff/data_files/volvox7.gff
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_Phylo.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_halfway.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_final_withPhylo.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/elegans_core.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_final.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_quarter.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/elegans_extra.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/volvox_refactored.conf
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/conf_files/HEADER.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/reformat.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/random_segments.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/expression_levels.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/random_feature.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/random_dna.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/bin/make_exon.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure14.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure29.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure8.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure27.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/semantic_zooming1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/enhancements1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure12.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/phylo_align2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/adding_dna_to_alignments1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure28.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/cds1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/multiple_alignments1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/third_party5.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/predicted_genes.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure20.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure13a.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/third_party2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure5.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure13b.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/plugins1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/config_editing.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/basic_conf1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure23.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure6.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/wiggle_density.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/enhancements3.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/third_party1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/descriptions1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure30.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure10.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/categorytable.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/multiple_alignments2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/trace2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/third_party4.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/plugins2.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure26.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/phylo_align1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/basics1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/DAS1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/dna1.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/figure11.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/overview1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/segmented_features1.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/tutorial/figures/canonical_gene2.gif
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Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/SeqFeature/Store/BedLoader.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/Tagger/Tag.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/Tagger/mysql.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/GBrowseFeature.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Karyotype.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/SendMail.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/RemoteSet.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/RegionSearch.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/TrackDumper.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/I18n.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserDB.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataSource.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Plugin.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/GFFhelper.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Realign.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Session.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Render.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/PadAlignment.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/ExternalData.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserTracks.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/OptionPick.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/PluginSet.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Region.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Action.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/CAlign.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/CachedTrack.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataBase.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Shellwords.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/RenderPanels.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Markup.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/SubtrackTable.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/AuthorizedFeatureFile.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Util.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/TrackConfig.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/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/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/UserTracks/Filesystem.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/TrackDumper/RichSeqMaker.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/DataLoader/sam.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bed.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/gff.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/featurefile.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/useq.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/archive.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/generic.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bam.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/bigwig.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/DataLoader/gff3.pm
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/bigbed.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/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::Graphics::Browser2::PadAlignment.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RenderPanels.3pm
Installing debian/gbrowse/man/man3/GBrowse::ConfigData.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger::Tag.3pm
Installing debian/gbrowse/man/man3/Bio::DB::SeqFeature::Store::Alias.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render::Slave::AWS_Balancer.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Markup.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PluginSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::archive.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Region.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Util.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::GFFhelper.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataSource.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::wormbase_gene.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::OptionPick.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render::Slave::Status.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin::AuthPlugin.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render.3pm
Installing debian/gbrowse/man/man3/Legacy::Graphics::Browser.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RegionSearch.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::reftranscript.3pm
Installing debian/gbrowse/man/man3/CGI::Toggle.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RemoteSet.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::match_gap.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::waba_alignment.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataLoader::useq.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Realign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::AuthorizedFeatureFile.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataBase.3pm
Installing debian/gbrowse/bin/gbrowse_metadb_config.pl
Installing debian/gbrowse/bin/gbrowse_slave
Installing debian/gbrowse/bin/gbrowse_syn_load_alignment_database.pl
Installing debian/gbrowse/bin/bed2gff3.pl
Installing debian/gbrowse/bin/gbrowse_clean.pl
Installing debian/gbrowse/bin/load_genbank.pl
Installing debian/gbrowse/bin/gbrowse_import_ucsc_db.pl
Installing debian/gbrowse/bin/ucsc_genes2gff.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignments_msa.pl
Installing debian/gbrowse/bin/gbrowse_configure_slaves.pl
Installing debian/gbrowse/bin/make_das_conf.pl
Installing debian/gbrowse/bin/wiggle2gff3.pl
Installing debian/gbrowse/bin/gtf2gff3.pl
Installing debian/gbrowse/bin/gbrowse_create_account.pl
Installing debian/gbrowse/bin/gbrowse_grow_cloud_vol.pl
Installing debian/gbrowse/bin/gbrowse_sync_aws_slave.pl
Installing debian/gbrowse/bin/gbrowse_change_passwd.pl
Installing debian/gbrowse/bin/gbrowse_aws_balancer.pl
Installing debian/gbrowse/bin/scan_gbrowse.pl
Installing debian/gbrowse/bin/gbrowse_set_admin_passwd.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::Pg 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 /<<BUILDDIR>>/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 871, <GEN91> line 10.
Performing variable substitutions in blib/etc/default/gbrowse-slave
Performing variable substitutions in blib/etc/init.d/gbrowse-aws-balancer
Performing variable substitutions in blib/etc/init.d/gbrowse-slave
Use of uninitialized value $wwwuser in substitution (s///) at /<<BUILDDIR>>/gbrowse-2.56+dfsg/install_util/GBrowseInstall.pm line 871, <GEN97> line 20.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/etc/init.d/gbrowse-slave
Installing debian/gbrowse/etc/init.d/gbrowse-aws-balancer
Installing debian/gbrowse/etc/default/gbrowse-slave
Installing debian/gbrowse/etc/default/gbrowse-aws-balancer
Installing debian/gbrowse/lib/perl5/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/perl5/5.26/auto/Bio/Graphics/Browser2/CAlign/
mkdir -p debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.26/Bio/Graphics/Browser2/
mv debian/gbrowse/usr/share/perl5/auto/Bio/Graphics/Browser2/CAlign/* debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/Browser2/CAlign/
mv debian/gbrowse/usr/share/perl5/Bio/Graphics/Browser2/CAlign.pm debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.26/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 /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/etc -name '*.new' | xargs file-rename 's/.new//'
rm -rf /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/usr/share/perl5/auto
# Update conf files
sed -i 's/gbrowse2/gbrowse/g' /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/yeast*.conf
sed -i 's/gbrowse2/gbrowse/g' /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/slave*.conf
# move OpenID constumer secret to /etc/gbrowse to make it system admin configurable
mv /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/usr/share/perl5/GBrowse/ConfigData.pm /<<BUILDDIR>>/gbrowse-2.56+dfsg/debian/gbrowse/etc/gbrowse/ConfigData.pm
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
dh_install -a
dh_apache2 -a
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
#Rename due to perl extension seen as polish
file-rename 's/\.pl\.1p/\.1p/' debian/gbrowse/man/man1/*.pl.1p
mkdir -p debian/gbrowse-calign/man/man3/
mv debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm debian/gbrowse-calign/man/man3/Bio::Graphics::Browser2::CAlign.3pm
dh_installman
rm -rf debian/gbrowse/man
rm -rf debian/gbrowse-calign/man
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.56+dfsg'
dh_lintian -a
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_missing -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-dbgsym' in '../gbrowse-calign-dbgsym_2.56+dfsg-2+b1_armhf.deb'.
dpkg-deb: building package 'gbrowse-calign' in '../gbrowse-calign_2.56+dfsg-2+b1_armhf.deb'.
dpkg-genbuildinfo --build=any
dpkg-genchanges --build=any -mRaspbian mythic lxc autobuilder 1 <root@raspbian.org> >../gbrowse_2.56+dfsg-2+b1_armhf.changes
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build gbrowse-2.56+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2017-07-30T05:02:45Z
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
gbrowse_2.56+dfsg-2+b1_armhf.changes:
-------------------------------------
Format: 1.8
Date: Fri, 20 Jan 2017 18:22:41 +0100
Source: gbrowse (2.56+dfsg-2)
Binary: gbrowse gbrowse-data gbrowse-calign
Binary-Only: yes
Architecture: armhf
Version: 2.56+dfsg-2+b1
Distribution: buster-staging
Urgency: low
Maintainer: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Changed-By: Raspbian mythic lxc autobuilder 1 <root@raspbian.org>
Description:
gbrowse - GMOD Generic Genome Browser
gbrowse-calign - CAlign helper
gbrowse-data - Sample data to use GBrowse
Changes:
gbrowse (2.56+dfsg-2+b1) buster-staging; urgency=low, binary-only=yes
.
* Binary-only non-maintainer upload for armhf; no source changes.
* rebuild due to debcheck failure
Checksums-Sha1:
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ac29ab9ca3760de769394214f63076a740146b15 35844 gbrowse-calign_2.56+dfsg-2+b1_armhf.deb
f31d86e6434c677e09cafdc4103623193224288b 7864 gbrowse_2.56+dfsg-2_armhf.buildinfo
Checksums-Sha256:
5df846e8c5a6de0d9f7068fe3efc1152c164b29cd29476a89e19db6049fc1e51 28288 gbrowse-calign-dbgsym_2.56+dfsg-2+b1_armhf.deb
d97699bc583ed49b6418b6449c4edb4af14250bd0553e35eb04622b0b56b89c2 35844 gbrowse-calign_2.56+dfsg-2+b1_armhf.deb
e07c9d1a66bc3cf78c11ca8224d7ef6daeeb338f7c0eb85b9356b09bb6a30ec3 7864 gbrowse_2.56+dfsg-2_armhf.buildinfo
Files:
9233227bf4e47687d8c390f003bcbbd1 28288 debug extra gbrowse-calign-dbgsym_2.56+dfsg-2+b1_armhf.deb
a62c2374203dbd14acc38edb8e97e017 35844 science optional gbrowse-calign_2.56+dfsg-2+b1_armhf.deb
4349c44da8467c116cfe3c333427d2c7 7864 science optional gbrowse_2.56+dfsg-2_armhf.buildinfo
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
gbrowse-calign-dbgsym_2.56+dfsg-2+b1_armhf.deb
----------------------------------------------
new debian package, version 2.0.
size 28288 bytes: control archive=471 bytes.
415 bytes, 12 lines control
106 bytes, 1 lines md5sums
Package: gbrowse-calign-dbgsym
Source: gbrowse (2.56+dfsg-2)
Version: 2.56+dfsg-2+b1
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-2+b1)
Section: debug
Priority: extra
Description: Debug symbols for gbrowse-calign
Build-Ids: aeac5619e6747ea72013af64c17636bf0596f375
drwxr-xr-x root/root 0 2017-01-20 17:22 ./
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/debug/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/debug/.build-id/ae/
-rw-r--r-- root/root 30724 2017-01-20 17:22 ./usr/lib/debug/.build-id/ae/ac5619e6747ea72013af64c17636bf0596f375.debug
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/doc/
lrwxrwxrwx root/root 0 2017-01-20 17:22 ./usr/share/doc/gbrowse-calign-dbgsym -> gbrowse-calign
gbrowse-calign_2.56+dfsg-2+b1_armhf.deb
---------------------------------------
new debian package, version 2.0.
size 35844 bytes: control archive=895 bytes.
643 bytes, 17 lines control
752 bytes, 8 lines md5sums
Package: gbrowse-calign
Source: gbrowse (2.56+dfsg-2)
Version: 2.56+dfsg-2+b1
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 77
Depends: perl (>= 5.26.0-4), perlapi-5.26.0, libc6 (>= 2.4), gbrowse
Section: science
Priority: optional
Homepage: http://www.gbrowse.org/
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 2017-01-20 17:22 ./
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/Bio/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/Bio/Graphics/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/Bio/Graphics/Browser2/
-rw-r--r-- root/root 1129 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/Bio/Graphics/Browser2/CAlign.pm
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/Browser2/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/Browser2/CAlign/
-rw-r--r-- root/root 0 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
-rw-r--r-- root/root 9516 2017-01-20 17:22 ./usr/lib/arm-linux-gnueabihf/perl5/5.26/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/doc/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/doc/gbrowse-calign/
-rw-r--r-- root/root 223 2017-01-20 17:22 ./usr/share/doc/gbrowse-calign/changelog.Debian.armhf.gz
-rw-r--r-- root/root 2067 2017-01-20 17:22 ./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 17978 2017-01-20 17:22 ./usr/share/doc/gbrowse-calign/copyright
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/man/
drwxr-xr-x root/root 0 2017-01-20 17:22 ./usr/share/man/man3/
-rw-r--r-- root/root 2128 2017-01-20 17:22 ./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-Space: 33648
Build-Time: 92
Distribution: buster-staging
Host Architecture: armhf
Install-Time: 517
Job: gbrowse_2.56+dfsg-2
Machine Architecture: armhf
Package: gbrowse
Package-Time: 628
Source-Version: 2.56+dfsg-2
Space: 33648
Status: successful
Version: 2.56+dfsg-2+b1
--------------------------------------------------------------------------------
Finished at 2017-07-30T05:02:45Z
Build needed 00:10:28, 33648k disk space