gbrowse →
2.54+dfsg-7 →
armhf → 2016-07-05 23:08:46
sbuild (Debian sbuild) 0.66.0 (04 Oct 2015) on testwandboard
+==============================================================================+
| gbrowse 2.54+dfsg-7 (armhf) 05 Jul 2016 22:53 |
+==============================================================================+
Package: gbrowse
Version: 2.54+dfsg-7
Source Version: 2.54+dfsg-7
Distribution: stretch-staging
Machine Architecture: armhf
Host Architecture: armhf
Build Architecture: armhf
I: NOTICE: Log filtering will replace 'build/gbrowse-jIhQNl/gbrowse-2.54+dfsg' with '<<PKGBUILDDIR>>'
I: NOTICE: Log filtering will replace 'build/gbrowse-jIhQNl' with '<<BUILDDIR>>'
I: NOTICE: Log filtering will replace 'var/lib/schroot/mount/stretch-staging-armhf-sbuild-b86dbfab-934e-497e-8239-2c55223ffe5d' with '<<CHROOT>>'
+------------------------------------------------------------------------------+
| Update chroot |
+------------------------------------------------------------------------------+
Get:1 http://172.17.0.1/private stretch-staging InRelease [11.3 kB]
Get:2 http://172.17.0.1/private stretch-staging/main Sources [9113 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf Packages [11.1 MB]
Fetched 20.2 MB in 1min 17s (262 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 4054 kB of source archives.
Get:1 http://172.17.0.1/private stretch-staging/main gbrowse 2.54+dfsg-7 (dsc) [2619 B]
Get:2 http://172.17.0.1/private stretch-staging/main gbrowse 2.54+dfsg-7 (tar) [4031 kB]
Get:3 http://172.17.0.1/private stretch-staging/main gbrowse 2.54+dfsg-7 (diff) [20.0 kB]
Fetched 4054 kB in 13s (300 kB/s)
Download complete and in download only mode
Check architectures
-------------------
Check dependencies
------------------
Merged Build-Depends: build-essential, fakeroot
Filtered Build-Depends: build-essential, fakeroot
dpkg-deb: building package 'sbuild-build-depends-core-dummy' in '/<<BUILDDIR>>/resolver-psItMW/apt_archive/sbuild-build-depends-core-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Sources [194 B]
Get:5 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ Packages [506 B]
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: file:///<<BUILDDIR>>/resolver-psItMW/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
Reading package lists...
+------------------------------------------------------------------------------+
| Install core build dependencies (apt-based resolver) |
+------------------------------------------------------------------------------+
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following NEW packages will be installed:
sbuild-build-depends-core-dummy
0 upgraded, 1 newly installed, 0 to remove and 45 not upgraded.
Need to get 0 B/768 B of archives.
After this operation, 0 B of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-psItMW/apt_archive ./ sbuild-build-depends-core-dummy 0.invalid.0 [768 B]
debconf: delaying package configuration, since apt-utils is not installed
Selecting previously unselected package sbuild-build-depends-core-dummy.
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(Reading database ... 13899 files and directories currently installed.)
Preparing to unpack .../sbuild-build-depends-core-dummy.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
Merged Build-Depends: bioperl, debhelper (>= 9), dh-apache2, dh-exec, apache2-dev, libbio-graphics-perl (>= 2.31), 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 (>= 9), dh-apache2, dh-exec, apache2-dev, libbio-graphics-perl (>= 2.31), 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-tSeL_P/apt_archive/sbuild-build-depends-gbrowse-dummy.deb'.
OK
Get:1 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ InRelease
Ign:1 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ InRelease
Get:2 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Release [2119 B]
Get:2 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Release [2119 B]
Get:3 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Release.gpg [299 B]
Get:3 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Release.gpg [299 B]
Get:4 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Sources [381 B]
Get:5 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ Packages [685 B]
Reading package lists...
W: No sandbox user '_apt' on the system, can not drop privileges
W: file:///<<BUILDDIR>>/resolver-tSeL_P/apt_archive/./Release.gpg: Signature by key 3493EC2B8E6DC280C121C60435506D9A48F77B2E uses weak digest algorithm (SHA1)
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
ca-certificates 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-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 libffi6
libfile-listing-perl libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libgd-gd2-perl libgd3 libglib2.0-0 libgnutls30 libhogweed4
libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu55 libidn11
libio-html-perl libio-socket-ssl-perl libio-string-perl libjbig0
libjpeg62-turbo libjs-prototype libjs-scriptaculous libjson-perl
libldap-2.4-2 libldap2-dev liblist-moreutils-perl liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic1 libmodule-build-perl libnet-http-perl
libnet-ssleay-perl libnettle6 libp11-kit0 libpipeline1 libpng16-16
libsasl2-2 libsasl2-modules-db libsctp-dev libsctp1 libsigsegv2 libsqlite3-0
libssl1.0.2 libstatistics-descriptive-perl libstring-approx-perl libtasn1-6
libterm-readkey-perl libtiff5 libtimedate-perl libtool libunistring0
liburi-perl libvm-ec2-perl libwebp5 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 openssl 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 gnutls-bin
libdata-dump-perl libcrypt-ssleay-perl lksctp-tools libtool-doc gfortran
| fortran95-compiler gcj-jdk libauthen-ntlm-perl 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 libgd-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 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
ca-certificates 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-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 libffi6
libfile-listing-perl libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libgd-gd2-perl libgd3 libglib2.0-0 libgnutls30 libhogweed4
libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-daemon-perl libhttp-date-perl
libhttp-message-perl libhttp-negotiate-perl libicu55 libidn11
libio-html-perl libio-socket-ssl-perl libio-string-perl libjbig0
libjpeg62-turbo libjs-prototype libjs-scriptaculous libjson-perl
libldap-2.4-2 libldap2-dev liblist-moreutils-perl liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic1 libmodule-build-perl libnet-http-perl
libnet-ssleay-perl libnettle6 libp11-kit0 libpipeline1 libpng16-16
libsasl2-2 libsasl2-modules-db libsctp-dev libsctp1 libsigsegv2 libsqlite3-0
libssl1.0.2 libstatistics-descriptive-perl libstring-approx-perl libtasn1-6
libterm-readkey-perl libtiff5 libtimedate-perl libtool libunistring0
liburi-perl libvm-ec2-perl libwebp5 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 openssl po-debconf rename
sbuild-build-depends-gbrowse-dummy sqlite3 ucf uuid-dev
0 upgraded, 124 newly installed, 0 to remove and 45 not upgraded.
Need to get 29.5 MB/40.7 MB of archives.
After this operation, 136 MB of additional disk space will be used.
Get:1 file:/<<BUILDDIR>>/resolver-tSeL_P/apt_archive ./ sbuild-build-depends-gbrowse-dummy 0.invalid.0 [948 B]
Get:2 http://172.17.0.1/private stretch-staging/main armhf groff-base armhf 1.22.3-7 [1083 kB]
Get:3 http://172.17.0.1/private stretch-staging/main armhf libbsd0 armhf 0.8.3-1 [89.0 kB]
Get:4 http://172.17.0.1/private stretch-staging/main armhf bsdmainutils armhf 9.0.10 [177 kB]
Get:5 http://172.17.0.1/private stretch-staging/main armhf libpipeline1 armhf 1.4.1-2 [23.7 kB]
Get:6 http://172.17.0.1/private stretch-staging/main armhf man-db armhf 2.7.5-1 [975 kB]
Get:7 http://172.17.0.1/private stretch-staging/main armhf libjbig0 armhf 2.1-3.1 [27.5 kB]
Get:8 http://172.17.0.1/private stretch-staging/main armhf libxau6 armhf 1:1.0.8-1 [19.9 kB]
Get:9 http://172.17.0.1/private stretch-staging/main armhf libxdmcp6 armhf 1:1.1.2-1.1 [24.9 kB]
Get:10 http://172.17.0.1/private stretch-staging/main armhf libxcb1 armhf 1.11.1-1 [40.9 kB]
Get:11 http://172.17.0.1/private stretch-staging/main armhf libx11-data all 2:1.6.3-1 [128 kB]
Get:12 http://172.17.0.1/private stretch-staging/main armhf libx11-6 armhf 2:1.6.3-1 [678 kB]
Get:13 http://172.17.0.1/private stretch-staging/main armhf libssl1.0.2 armhf 1.0.2h-1 [889 kB]
Get:14 http://172.17.0.1/private stretch-staging/main armhf libmagic1 armhf 1:5.28-2 [269 kB]
Get:15 http://172.17.0.1/private stretch-staging/main armhf file armhf 1:5.28-2 [62.4 kB]
Get:16 http://172.17.0.1/private stretch-staging/main armhf gettext-base armhf 0.19.8.1-1 [117 kB]
Get:17 http://172.17.0.1/private stretch-staging/main armhf libidn11 armhf 1.32-3.1 [110 kB]
Get:18 http://172.17.0.1/private stretch-staging/main armhf libtasn1-6 armhf 4.8-1 [44.1 kB]
Get:19 http://172.17.0.1/private stretch-staging/main armhf libgnutls30 armhf 3.4.13-1 [737 kB]
Get:20 http://172.17.0.1/private stretch-staging/main armhf libsasl2-modules-db armhf 2.1.26.dfsg1-15 [65.6 kB]
Get:21 http://172.17.0.1/private stretch-staging/main armhf libsasl2-2 armhf 2.1.26.dfsg1-15 [96.7 kB]
Get:22 http://172.17.0.1/private stretch-staging/main armhf libldap-2.4-2 armhf 2.4.42+dfsg-2+rpi1+b2 [198 kB]
Get:23 http://172.17.0.1/private stretch-staging/main armhf libsqlite3-0 armhf 3.13.0-1 [479 kB]
Get:24 http://172.17.0.1/private stretch-staging/main armhf libsigsegv2 armhf 2.10-5 [28.4 kB]
Get:25 http://172.17.0.1/private stretch-staging/main armhf m4 armhf 1.4.17-5 [239 kB]
Get:26 http://172.17.0.1/private stretch-staging/main armhf ucf all 3.0036 [70.2 kB]
Get:27 http://172.17.0.1/private stretch-staging/main armhf openssl armhf 1.0.2h-1 [667 kB]
Get:28 http://172.17.0.1/private stretch-staging/main armhf libapr1 armhf 1.5.2-4 [79.4 kB]
Get:29 http://172.17.0.1/private stretch-staging/main armhf uuid-dev armhf 2.28-5 [82.4 kB]
Get:30 http://172.17.0.1/private stretch-staging/main armhf libsctp1 armhf 1.0.17+dfsg-1 [27.3 kB]
Get:31 http://172.17.0.1/private stretch-staging/main armhf libsctp-dev armhf 1.0.17+dfsg-1 [82.6 kB]
Get:32 http://172.17.0.1/private stretch-staging/main armhf libapr1-dev armhf 1.5.2-4 [644 kB]
Get:33 http://172.17.0.1/private stretch-staging/main armhf libexpat1 armhf 2.2.0-1 [61.7 kB]
Get:34 http://172.17.0.1/private stretch-staging/main armhf libaprutil1 armhf 1.5.4-1+b1 [75.6 kB]
Get:35 http://172.17.0.1/private stretch-staging/main armhf libldap2-dev armhf 2.4.42+dfsg-2+rpi1+b2 [305 kB]
Get:36 http://172.17.0.1/private stretch-staging/main armhf libexpat1-dev armhf 2.2.0-1 [117 kB]
Get:37 http://172.17.0.1/private stretch-staging/main armhf libaprutil1-dev armhf 1.5.4-1+b1 [365 kB]
Get:38 http://172.17.0.1/private stretch-staging/main armhf libcroco3 armhf 0.6.11-1 [131 kB]
Get:39 http://172.17.0.1/private stretch-staging/main armhf libunistring0 armhf 0.9.6+really0.9.3-0.1 [252 kB]
Get:40 http://172.17.0.1/private stretch-staging/main armhf gettext armhf 0.19.8.1-1 [1433 kB]
Get:41 http://172.17.0.1/private stretch-staging/main armhf intltool-debian all 0.35.0+20060710.4 [26.3 kB]
Get:42 http://172.17.0.1/private stretch-staging/main armhf po-debconf all 1.0.19 [249 kB]
Get:43 http://172.17.0.1/private stretch-staging/main armhf libarchive-zip-perl all 1.57-1 [95.1 kB]
Get:44 http://172.17.0.1/private stretch-staging/main armhf libfile-stripnondeterminism-perl all 0.019-1 [12.2 kB]
Get:45 http://172.17.0.1/private stretch-staging/main armhf libtimedate-perl all 2.3000-2 [42.2 kB]
Get:46 http://172.17.0.1/private stretch-staging/main armhf dh-strip-nondeterminism all 0.019-1 [7352 B]
Get:47 http://172.17.0.1/private stretch-staging/main armhf autotools-dev all 20160430.1 [72.6 kB]
Get:48 http://172.17.0.1/private stretch-staging/main armhf autoconf all 2.69-10 [338 kB]
Get:49 http://172.17.0.1/private stretch-staging/main armhf automake all 1:1.15-4 [735 kB]
Get:50 http://172.17.0.1/private stretch-staging/main armhf autopoint all 0.19.8.1-1 [433 kB]
Get:51 http://172.17.0.1/private stretch-staging/main armhf libtool all 2.4.6-0.1 [200 kB]
Get:52 http://172.17.0.1/private stretch-staging/main armhf dh-autoreconf all 12 [15.8 kB]
Get:53 http://172.17.0.1/private stretch-staging/main armhf debhelper all 9.20160403 [800 kB]
Get:54 http://172.17.0.1/private stretch-staging/main armhf apache2-dev armhf 2.4.20-2 [301 kB]
Get:55 http://172.17.0.1/private stretch-staging/main armhf libio-string-perl all 1.08-3 [12.3 kB]
Get:56 http://172.17.0.1/private stretch-staging/main armhf libdata-stag-perl all 0.14-2 [448 kB]
Get:57 http://172.17.0.1/private stretch-staging/main armhf libbio-perl-perl all 1.6.924-5 [4746 kB]
Get:58 http://172.17.0.1/private stretch-staging/main armhf bioperl all 1.6.924-5 [418 kB]
Get:59 http://172.17.0.1/private stretch-staging/main armhf ca-certificates all 20160104 [200 kB]
Get:60 http://172.17.0.1/private stretch-staging/main armhf fonts-dejavu-core all 2.35-1 [1064 kB]
Get:61 http://172.17.0.1/private stretch-staging/main armhf fontconfig-config all 2.11.0-6.4 [271 kB]
Get:62 http://172.17.0.1/private stretch-staging/main armhf libanyevent-perl armhf 7.110-1+rpi1 [391 kB]
Get:63 http://172.17.0.1/private stretch-staging/main armhf libanyevent-cachedns-perl all 0.08-2 [7150 B]
Get:64 http://172.17.0.1/private stretch-staging/main armhf libcommon-sense-perl armhf 3.74-1+b2 [23.9 kB]
Get:65 http://172.17.0.1/private stretch-staging/main armhf libanyevent-http-perl all 2.22-1 [35.0 kB]
Get:66 http://172.17.0.1/private stretch-staging/main armhf libpng16-16 armhf 1.6.23-1 [260 kB]
Get:67 http://172.17.0.1/private stretch-staging/main armhf libfreetype6 armhf 2.6.3-3+b1 [385 kB]
Get:68 http://172.17.0.1/private stretch-staging/main armhf libfontconfig1 armhf 2.11.0-6.4 [313 kB]
Get:69 http://172.17.0.1/private stretch-staging/main armhf libjpeg62-turbo armhf 1:1.5.0-1 [109 kB]
Get:70 http://172.17.0.1/private stretch-staging/main armhf libtiff5 armhf 4.0.6-1 [201 kB]
Get:71 http://172.17.0.1/private stretch-staging/main armhf libwebp5 armhf 0.4.4-1+b2 [175 kB]
Get:72 http://172.17.0.1/private stretch-staging/main armhf libxpm4 armhf 1:3.5.11-1+b1 [42.4 kB]
Get:73 http://172.17.0.1/private stretch-staging/main armhf libgd3 armhf 2.2.1-1 [117 kB]
Get:74 http://172.17.0.1/private stretch-staging/main armhf libgd-gd2-perl armhf 1:2.46-3.1+b3 [167 kB]
Get:75 http://172.17.0.1/private stretch-staging/main armhf libbio-graphics-perl all 2.39-5 [605 kB]
Get:76 http://172.17.0.1/private stretch-staging/main armhf libcapture-tiny-perl all 0.42-1 [25.2 kB]
Get:77 http://172.17.0.1/private stretch-staging/main armhf libhtml-tagset-perl all 3.20-2 [13.5 kB]
Get:78 http://172.17.0.1/private stretch-staging/main armhf liburi-perl all 1.71-1 [88.6 kB]
Get:79 http://172.17.0.1/private stretch-staging/main armhf libhtml-parser-perl armhf 3.72-1 [101 kB]
Get:80 http://172.17.0.1/private stretch-staging/main armhf libcgi-pm-perl all 4.28-1 [220 kB]
Get:81 http://172.17.0.1/private stretch-staging/main armhf libcgi-session-perl all 4.48-3 [119 kB]
Get:82 http://172.17.0.1/private stretch-staging/main armhf libdbi-perl armhf 1.636-1 [761 kB]
Get:83 http://172.17.0.1/private stretch-staging/main armhf libdbd-sqlite3-perl armhf 1.50-1 [156 kB]
Get:84 http://172.17.0.1/private stretch-staging/main armhf libencode-locale-perl all 1.05-1 [13.7 kB]
Get:85 http://172.17.0.1/private stretch-staging/main armhf libexporter-tiny-perl all 0.042-1 [32.4 kB]
Get:86 http://172.17.0.1/private stretch-staging/main armhf libhttp-date-perl all 6.02-1 [10.7 kB]
Get:87 http://172.17.0.1/private stretch-staging/main armhf libfile-listing-perl all 6.04-1 [10.3 kB]
Get:88 http://172.17.0.1/private stretch-staging/main armhf libhtml-tree-perl all 5.03-2 [210 kB]
Get:89 http://172.17.0.1/private stretch-staging/main armhf libio-html-perl all 1.001-1 [17.6 kB]
Get:90 http://172.17.0.1/private stretch-staging/main armhf liblwp-mediatypes-perl all 6.02-1 [22.1 kB]
Get:91 http://172.17.0.1/private stretch-staging/main armhf libhttp-message-perl all 6.11-1 [75.9 kB]
Get:92 http://172.17.0.1/private stretch-staging/main armhf libhttp-cookies-perl all 6.01-1 [17.4 kB]
Get:93 http://172.17.0.1/private stretch-staging/main armhf libhttp-daemon-perl all 6.01-1 [17.3 kB]
Get:94 http://172.17.0.1/private stretch-staging/main armhf libhttp-negotiate-perl all 6.00-2 [13.6 kB]
Get:95 http://172.17.0.1/private stretch-staging/main armhf libnet-ssleay-perl armhf 1.74-1 [264 kB]
Get:96 http://172.17.0.1/private stretch-staging/main armhf libio-socket-ssl-perl all 2.029-1 [191 kB]
Get:97 http://172.17.0.1/private stretch-staging/main armhf libjs-prototype all 1.7.1-3 [44.3 kB]
Get:98 http://172.17.0.1/private stretch-staging/main armhf libjs-scriptaculous all 1.9.0-2 [129 kB]
Get:99 http://172.17.0.1/private stretch-staging/main armhf libjson-perl all 2.90-1 [86.0 kB]
Get:100 http://172.17.0.1/private stretch-staging/main armhf liblist-moreutils-perl armhf 0.413-1+b1 [68.0 kB]
Get:101 http://172.17.0.1/private stretch-staging/main armhf libnet-http-perl all 6.09-1 [25.1 kB]
Get:102 http://172.17.0.1/private stretch-staging/main armhf libwww-robotrules-perl all 6.01-1 [14.3 kB]
Get:103 http://172.17.0.1/private stretch-staging/main armhf libwww-perl all 6.15-1 [195 kB]
Get:104 http://172.17.0.1/private stretch-staging/main armhf liblwp-protocol-https-perl all 6.06-2 [9582 B]
Get:105 http://172.17.0.1/private stretch-staging/main armhf libmodule-build-perl all 0.421800-1 [258 kB]
Get:106 http://172.17.0.1/private stretch-staging/main armhf libstatistics-descriptive-perl all 3.0612-1 [41.9 kB]
Get:107 http://172.17.0.1/private stretch-staging/main armhf libstring-approx-perl armhf 3.27-1+b3 [38.2 kB]
Get:108 http://172.17.0.1/private stretch-staging/main armhf libterm-readkey-perl armhf 2.33-1+b1 [29.4 kB]
Get:109 http://172.17.0.1/private stretch-staging/main armhf libxml-namespacesupport-perl all 1.11-1 [14.8 kB]
Get:110 http://172.17.0.1/private stretch-staging/main armhf libxml-sax-base-perl all 1.07-1 [23.1 kB]
Get:111 http://172.17.0.1/private stretch-staging/main armhf libxml-sax-perl all 0.99+dfsg-2 [68.3 kB]
Get:112 http://172.17.0.1/private stretch-staging/main armhf libxml-libxml-perl armhf 2.0126+dfsg-1 [317 kB]
Get:113 http://172.17.0.1/private stretch-staging/main armhf libxml-simple-perl all 2.22-1 [71.8 kB]
Get:114 http://172.17.0.1/private stretch-staging/main armhf libvm-ec2-perl all 1.28-2 [768 kB]
Get:115 http://172.17.0.1/private stretch-staging/main armhf rename all 0.20-4 [12.5 kB]
Get:116 http://172.17.0.1/private stretch-staging/main armhf sqlite3 armhf 3.13.0-1 [578 kB]
Get:117 http://172.17.0.1/private stretch-staging/main armhf dh-exec armhf 0.23 [24.9 kB]
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Unpacking libhttp-cookies-perl (6.01-1) ...
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Unpacking libnet-ssleay-perl (1.74-1) ...
Selecting previously unselected package libio-socket-ssl-perl.
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Unpacking liblwp-protocol-https-perl (6.06-2) ...
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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 (0.421800-1) ...
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Processing triggers for libc-bin (2.22-9) ...
Setting up groff-base (1.22.3-7) ...
Setting up libbsd0:armhf (0.8.3-1) ...
Setting up bsdmainutils (9.0.10) ...
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 libpipeline1:armhf (1.4.1-2) ...
Setting up man-db (2.7.5-1) ...
Not building database; man-db/auto-update is not 'true'.
Setting up libjbig0:armhf (2.1-3.1) ...
Setting up libxau6:armhf (1:1.0.8-1) ...
Setting up libxdmcp6:armhf (1:1.1.2-1.1) ...
Setting up libxcb1:armhf (1.11.1-1) ...
Setting up libx11-data (2:1.6.3-1) ...
Setting up libx11-6:armhf (2:1.6.3-1) ...
Setting up libssl1.0.2:armhf (1.0.2h-1) ...
Setting up libmagic1:armhf (1:5.28-2) ...
Setting up file (1:5.28-2) ...
Setting up gettext-base (0.19.8.1-1) ...
Setting up libnettle6:armhf (3.2-1) ...
Setting up libhogweed4:armhf (3.2-1) ...
Setting up libidn11:armhf (1.32-3.1) ...
Setting up libffi6:armhf (3.2.1-4) ...
Setting up libp11-kit0:armhf (0.23.2-3) ...
Setting up libtasn1-6:armhf (4.8-1) ...
Setting up libgnutls30:armhf (3.4.13-1) ...
Setting up libsasl2-modules-db:armhf (2.1.26.dfsg1-15) ...
Setting up libsasl2-2:armhf (2.1.26.dfsg1-15) ...
Setting up libldap-2.4-2:armhf (2.4.42+dfsg-2+rpi1+b2) ...
Setting up libsqlite3-0:armhf (3.13.0-1) ...
Setting up libicu55:armhf (55.1-7) ...
Setting up libxml2:armhf (2.9.3+dfsg1-1.2) ...
Setting up libsigsegv2:armhf (2.10-5) ...
Setting up m4 (1.4.17-5) ...
Setting up ucf (3.0036) ...
Setting up openssl (1.0.2h-1) ...
Setting up libapr1:armhf (1.5.2-4) ...
Setting up uuid-dev:armhf (2.28-5) ...
Setting up libsctp1:armhf (1.0.17+dfsg-1) ...
Setting up libsctp-dev (1.0.17+dfsg-1) ...
Setting up libapr1-dev (1.5.2-4) ...
Setting up libexpat1:armhf (2.2.0-1) ...
Setting up libaprutil1:armhf (1.5.4-1+b1) ...
Setting up libldap2-dev:armhf (2.4.42+dfsg-2+rpi1+b2) ...
Setting up libexpat1-dev:armhf (2.2.0-1) ...
Setting up libaprutil1-dev (1.5.4-1+b1) ...
Setting up libglib2.0-0:armhf (2.48.1-1) ...
No schema files found: doing nothing.
Setting up libcroco3:armhf (0.6.11-1) ...
Setting up libunistring0:armhf (0.9.6+really0.9.3-0.1) ...
Setting up gettext (0.19.8.1-1) ...
Setting up intltool-debian (0.35.0+20060710.4) ...
Setting up po-debconf (1.0.19) ...
Setting up libarchive-zip-perl (1.57-1) ...
Setting up libfile-stripnondeterminism-perl (0.019-1) ...
Setting up libtimedate-perl (2.3000-2) ...
Setting up autotools-dev (20160430.1) ...
Setting up autoconf (2.69-10) ...
Setting up automake (1:1.15-4) ...
update-alternatives: using /usr/bin/automake-1.15 to provide /usr/bin/automake (automake) in auto mode
Setting up autopoint (0.19.8.1-1) ...
Setting up libtool (2.4.6-0.1) ...
Setting up libio-string-perl (1.08-3) ...
Setting up libdata-stag-perl (0.14-2) ...
Setting up libbio-perl-perl (1.6.924-5) ...
Setting up bioperl (1.6.924-5) ...
Setting up ca-certificates (20160104) ...
Setting up fonts-dejavu-core (2.35-1) ...
Setting up fontconfig-config (2.11.0-6.4) ...
Setting up libanyevent-perl (7.110-1+rpi1) ...
Setting up libanyevent-cachedns-perl (0.08-2) ...
Setting up libcommon-sense-perl (3.74-1+b2) ...
Setting up libanyevent-http-perl (2.22-1) ...
Setting up libpng16-16:armhf (1.6.23-1) ...
Setting up libfreetype6:armhf (2.6.3-3+b1) ...
Setting up libfontconfig1:armhf (2.11.0-6.4) ...
Setting up libjpeg62-turbo:armhf (1:1.5.0-1) ...
Setting up libtiff5:armhf (4.0.6-1) ...
Setting up libwebp5:armhf (0.4.4-1+b2) ...
Setting up libxpm4:armhf (1:3.5.11-1+b1) ...
Setting up libgd3:armhf (2.2.1-1) ...
Setting up libgd-gd2-perl (1:2.46-3.1+b3) ...
Setting up libbio-graphics-perl (2.39-5) ...
Setting up libcapture-tiny-perl (0.42-1) ...
Setting up libhtml-tagset-perl (3.20-2) ...
Setting up liburi-perl (1.71-1) ...
Setting up libhtml-parser-perl (3.72-1) ...
Setting up libcgi-pm-perl (4.28-1) ...
Setting up libcgi-session-perl (4.48-3) ...
Setting up libdbi-perl (1.636-1) ...
Setting up libdbd-sqlite3-perl (1.50-1) ...
Setting up libencode-locale-perl (1.05-1) ...
Setting up libexporter-tiny-perl (0.042-1) ...
Setting up libhttp-date-perl (6.02-1) ...
Setting up libfile-listing-perl (6.04-1) ...
Setting up libhtml-tree-perl (5.03-2) ...
Setting up libio-html-perl (1.001-1) ...
Setting up liblwp-mediatypes-perl (6.02-1) ...
Setting up libhttp-message-perl (6.11-1) ...
Setting up libhttp-cookies-perl (6.01-1) ...
Setting up libhttp-daemon-perl (6.01-1) ...
Setting up libhttp-negotiate-perl (6.00-2) ...
Setting up libnet-ssleay-perl (1.74-1) ...
Setting up libio-socket-ssl-perl (2.029-1) ...
Setting up libjs-prototype (1.7.1-3) ...
Setting up libjs-scriptaculous (1.9.0-2) ...
Setting up libjson-perl (2.90-1) ...
Setting up liblist-moreutils-perl (0.413-1+b1) ...
Setting up libnet-http-perl (6.09-1) ...
Setting up libwww-robotrules-perl (6.01-1) ...
Setting up libmodule-build-perl (0.421800-1) ...
Setting up libstatistics-descriptive-perl (3.0612-1) ...
Setting up libstring-approx-perl (3.27-1+b3) ...
Setting up libterm-readkey-perl (2.33-1+b1) ...
Setting up libxml-namespacesupport-perl (1.11-1) ...
Setting up libxml-sax-base-perl (1.07-1) ...
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 libxml-libxml-perl (2.0126+dfsg-1) ...
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 libxml-simple-perl (2.22-1) ...
Setting up rename (0.20-4) ...
update-alternatives: using /usr/bin/file-rename to provide /usr/bin/rename (rename) in auto mode
Setting up sqlite3 (3.13.0-1) ...
Setting up dh-strip-nondeterminism (0.019-1) ...
Setting up dh-autoreconf (12) ...
Setting up liblwp-protocol-https-perl (6.06-2) ...
Setting up debhelper (9.20160403) ...
Setting up apache2-dev (2.4.20-2) ...
Setting up libwww-perl (6.15-1) ...
Setting up libvm-ec2-perl (1.28-2) ...
Setting up dh-exec (0.23) ...
Setting up sbuild-build-depends-gbrowse-dummy (0.invalid.0) ...
Processing triggers for libc-bin (2.22-9) ...
Processing triggers for ca-certificates (20160104) ...
Updating certificates in /etc/ssl/certs...
173 added, 0 removed; done.
Running hooks in /etc/ca-certificates/update.d...
done.
W: No sandbox user '_apt' on the system, can not drop privileges
+------------------------------------------------------------------------------+
| Build environment |
+------------------------------------------------------------------------------+
Kernel: Linux 4.5.0-1-armmp armhf (armv7l)
Toolchain package versions: binutils_2.26-10 dpkg-dev_1.18.7 g++-5_5.3.1-21 gcc-5_5.3.1-21 libc6-dev_2.22-9 libstdc++-5-dev_5.3.1-21 libstdc++6_6.1.1-1+rpi1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch
Package versions: adduser_3.114 apache2-dev_2.4.20-2 apt_1.2.12 autoconf_2.69-10 automake_1:1.15-4 autopoint_0.19.8.1-1 autotools-dev_20160430.1 base-files_9.6+rpi1 base-passwd_3.5.39 bash_4.3-14 binutils_2.26-10 bioperl_1.6.924-5 bsdmainutils_9.0.10 bsdutils_1:2.28-5 build-essential_11.7 bzip2_1.0.6-8 ca-certificates_20160104 console-setup_1.146 console-setup-linux_1.146 coreutils_8.25-2 cpio_2.11+dfsg-5 cpp_4:5.3.1-3 cpp-5_5.3.1-21 dash_0.5.8-2.2 debconf_1.5.59 debfoster_2.7-2 debhelper_9.20160403 debianutils_4.7 dh-autoreconf_12 dh-exec_0.23 dh-strip-nondeterminism_0.019-1 diffutils_1:3.3-3 dmsetup_2:1.02.124-1 dpkg_1.18.7 dpkg-dev_1.18.7 e2fslibs_1.43-3 e2fsprogs_1.43-3 fakeroot_1.20.2-2 file_1:5.28-2 findutils_4.6.0+git+20160126-2 fontconfig-config_2.11.0-6.4 fonts-dejavu-core_2.35-1 fuse2fs_1.43-3 g++_4:5.3.1-3 g++-5_5.3.1-21 gcc_4:5.3.1-3 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_5.3.1-21 gcc-5-base_5.3.1-21 gcc-6-base_6.1.1-1+rpi1 gettext_0.19.8.1-1 gettext-base_0.19.8.1-1 gnupg_1.4.20-6 gpgv_1.4.20-6 grep_2.25-3 groff-base_1.22.3-7 gzip_1.6-5 hostname_3.17 ifupdown_0.8.13 init_1.34 init-system-helpers_1.34 initscripts_2.88dsf-59.4 insserv_1.14.0-5.3 intltool-debian_0.35.0+20060710.4 iproute2_4.3.0-1 kbd_2.0.3-2 keyboard-configuration_1.146 klibc-utils_2.0.4-9+rpi1 kmod_22-1.1 libacl1_2.2.52-3 libanyevent-cachedns-perl_0.08-2 libanyevent-http-perl_2.22-1 libanyevent-perl_7.110-1+rpi1 libapparmor1_2.10-4 libapr1_1.5.2-4 libapr1-dev_1.5.2-4 libaprutil1_1.5.4-1+b1 libaprutil1-dev_1.5.4-1+b1 libapt-pkg5.0_1.2.12 libarchive-zip-perl_1.57-1 libasan2_5.3.1-21 libatm1_1:2.5.1-1.5 libatomic1_6.1.1-1+rpi1 libattr1_1:2.4.47-2 libaudit-common_1:2.5.2-1+rpi1 libaudit1_1:2.5.2-1+rpi1 libbio-graphics-perl_2.39-5 libbio-perl-perl_1.6.924-5 libblkid1_2.28-5 libbsd0_0.8.3-1 libbz2-1.0_1.0.6-8 libc-bin_2.22-9 libc-dev-bin_2.22-9 libc6_2.22-9 libc6-dev_2.22-9 libcap2_1:2.25-1 libcap2-bin_1:2.25-1 libcapture-tiny-perl_0.42-1 libcc1-0_6.1.1-1+rpi1 libcgi-pm-perl_4.28-1 libcgi-session-perl_4.48-3 libcomerr2_1.43-3 libcommon-sense-perl_3.74-1+b2 libcroco3_0.6.11-1 libcryptsetup4_2:1.7.0-2 libdata-stag-perl_0.14-2 libdb5.3_5.3.28-11 libdbd-sqlite3-perl_1.50-1 libdbi-perl_1.636-1 libdbus-1-3_1.10.8-1 libdebconfclient0_0.213 libdevmapper1.02.1_2:1.02.124-1 libdpkg-perl_1.18.7 libdrm2_2.4.68-1 libencode-locale-perl_1.05-1 libexpat1_2.2.0-1 libexpat1-dev_2.2.0-1 libexporter-tiny-perl_0.042-1 libfakeroot_1.20.2-2 libfdisk1_2.28-5 libffi6_3.2.1-4 libfile-listing-perl_6.04-1 libfile-stripnondeterminism-perl_0.019-1 libfontconfig1_2.11.0-6.4 libfreetype6_2.6.3-3+b1 libfuse2_2.9.6-1 libgc1c2_1:7.4.2-8 libgcc-5-dev_5.3.1-21 libgcc1_1:6.1.1-1+rpi1 libgcrypt20_1.7.0-2 libgd-gd2-perl_1:2.46-3.1+b3 libgd3_2.2.1-1 libgdbm3_1.8.3-13.1 libglib2.0-0_2.48.1-1 libgmp10_2:6.1.0+dfsg-2 libgnutls30_3.4.13-1 libgomp1_6.1.1-1+rpi1 libgpg-error0_1.22-2 libhogweed4_3.2-1 libhtml-parser-perl_3.72-1 libhtml-tagset-perl_3.20-2 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 libicu55_55.1-7 libidn11_1.32-3.1 libio-html-perl_1.001-1 libio-socket-ssl-perl_2.029-1 libio-string-perl_1.08-3 libisl15_0.17.1-1 libjbig0_2.1-3.1 libjpeg62-turbo_1:1.5.0-1 libjs-prototype_1.7.1-3 libjs-scriptaculous_1.9.0-2 libjson-perl_2.90-1 libklibc_2.0.4-9+rpi1 libkmod2_22-1.1 libldap-2.4-2_2.4.42+dfsg-2+rpi1+b2 libldap2-dev_2.4.42+dfsg-2+rpi1+b2 liblist-moreutils-perl_0.413-1+b1 liblocale-gettext-perl_1.07-2 liblwp-mediatypes-perl_6.02-1 liblwp-protocol-https-perl_6.06-2 liblz4-1_0.0~r131-2 liblzma5_5.1.1alpha+20120614-2.1 libmagic1_1:5.28-2 libmodule-build-perl_0.421800-1 libmount1_2.28-5 libmpc3_1.0.3-1 libmpfr4_3.1.4-2 libncurses5_6.0+20160319-1 libncursesw5_6.0+20160319-1 libnet-http-perl_6.09-1 libnet-ssleay-perl_1.74-1 libnettle6_3.2-1 libp11-kit0_0.23.2-3 libpam-modules_1.1.8-3.3 libpam-modules-bin_1.1.8-3.3 libpam-runtime_1.1.8-3.3 libpam0g_1.1.8-3.3 libpcre3_2:8.38-3.1 libperl5.22_5.22.2-1 libpipeline1_1.4.1-2 libplymouth4_0.9.2-3 libpng12-0_1.2.54-6 libpng16-16_1.6.23-1 libprocps5_2:3.3.11-3 libreadline6_6.3-8+b3 libsasl2-2_2.1.26.dfsg1-15 libsasl2-modules-db_2.1.26.dfsg1-15 libsctp-dev_1.0.17+dfsg-1 libsctp1_1.0.17+dfsg-1 libseccomp2_2.3.1-2 libselinux1_2.5-3 libsemanage-common_2.5-1 libsemanage1_2.5-1 libsepol1_2.5-1 libsigsegv2_2.10-5 libsmartcols1_2.28-5 libsqlite3-0_3.13.0-1 libss2_1.43-3 libssl1.0.2_1.0.2h-1 libstatistics-descriptive-perl_3.0612-1 libstdc++-5-dev_5.3.1-21 libstdc++6_6.1.1-1+rpi1 libstring-approx-perl_3.27-1+b3 libsystemd0_230-2 libtasn1-6_4.8-1 libterm-readkey-perl_2.33-1+b1 libtext-charwidth-perl_0.04-7+b6 libtext-iconv-perl_1.7-5+b7 libtext-wrapi18n-perl_0.06-7.1 libtiff5_4.0.6-1 libtimedate-perl_2.3000-2 libtinfo5_6.0+20160319-1 libtool_2.4.6-0.1 libubsan0_6.1.1-1+rpi1 libudev1_230-2 libunistring0_0.9.6+really0.9.3-0.1 liburi-perl_1.71-1 libusb-0.1-4_2:0.1.12-30 libustr-1.0-1_1.0.4-5 libuuid1_2.28-5 libvm-ec2-perl_1.28-2 libwebp5_0.4.4-1+b2 libwww-perl_6.15-1 libwww-robotrules-perl_6.01-1 libx11-6_2:1.6.3-1 libx11-data_2:1.6.3-1 libxau6_1:1.0.8-1 libxcb1_1.11.1-1 libxdmcp6_1:1.1.2-1.1 libxml-libxml-perl_2.0126+dfsg-1 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_2.9.3+dfsg1-1.2 libxpm4_1:3.5.11-1+b1 linux-libc-dev_3.18.5-1~exp1+rpi19+stretch login_1:4.2-3.1 lsb-base_9.20160110+rpi1 m4_1.4.17-5 make_4.1-9 makedev_2.3.1-93 man-db_2.7.5-1 manpages_4.06-1 mawk_1.3.3-17 mount_2.28-5 multiarch-support_2.22-9 ncurses-base_6.0+20160319-1 ncurses-bin_6.0+20160319-1 netbase_5.3 openssl_1.0.2h-1 passwd_1:4.2-3.1 patch_2.7.5-1 perl_5.22.2-1 perl-base_5.22.2-1 perl-modules-5.22_5.22.2-1 po-debconf_1.0.19 procps_2:3.3.11-3 psmisc_22.21-2.1 raspbian-archive-keyring_20120528.2 readline-common_6.3-8 rename_0.20-4 sbuild-build-depends-core-dummy_0.invalid.0 sbuild-build-depends-gbrowse-dummy_0.invalid.0 sed_4.2.2-7.1 sensible-utils_0.0.9 sqlite3_3.13.0-1 startpar_0.59-3 systemd_230-2 systemd-sysv_230-2 sysv-rc_2.88dsf-59.4 sysvinit-utils_2.88dsf-59.4 tar_1.29-1+rpi1 tzdata_2016d-2 ucf_3.0036 udev_230-2 util-linux_2.28-5 uuid-dev_2.28-5 xkb-data_2.17-1 xz-utils_5.1.1alpha+20120614-2.1 zlib1g_1:1.2.8.dfsg-2+b1
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
gpgv: keyblock resource `/sbuild-nonexistent/.gnupg/trustedkeys.gpg': file open error
gpgv: Signature made Wed Jun 29 07:48:01 2016 UTC using RSA key ID D1C646D1
gpgv: Can't check signature: public key not found
dpkg-source: warning: failed to verify signature on ./gbrowse_2.54+dfsg-7.dsc
dpkg-source: info: extracting gbrowse in gbrowse-2.54+dfsg
dpkg-source: info: unpacking gbrowse_2.54+dfsg.orig.tar.bz2
dpkg-source: info: unpacking gbrowse_2.54+dfsg-7.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 skipRenderFarmTest_UpstreamBug12
dpkg-source: info: applying skip_check_installed_test.patch
dpkg-source: info: applying source_init_functions
Check disc space
----------------
Sufficient free space for build
User Environment
----------------
DEB_BUILD_OPTIONS=parallel=4
HOME=/sbuild-nonexistent
LOGNAME=buildd
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=stretch-staging-armhf-sbuild
SCHROOT_CHROOT_NAME=stretch-staging-armhf-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=109
SCHROOT_GROUP=buildd
SCHROOT_SESSION_ID=stretch-staging-armhf-sbuild-b86dbfab-934e-497e-8239-2c55223ffe5d
SCHROOT_UID=104
SCHROOT_USER=buildd
SHELL=/bin/sh
TERM=linux
USER=buildd
dpkg-buildpackage
-----------------
dpkg-buildpackage: info: source package gbrowse
dpkg-buildpackage: info: source version 2.54+dfsg-7
dpkg-buildpackage: info: source distribution unstable
dpkg-source --before-build gbrowse-2.54+dfsg
dpkg-buildpackage: info: host architecture armhf
fakeroot debian/rules clean
dh clean --with apache2
dh_testdir
dh_auto_clean
dh_clean
debian/rules build-arch
dh build-arch --with apache2
dh_testdir -a
dh_update_autotools_config -a
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.54+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 Build.PL --installdirs vendor --config "optimize=-g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wdate-time -D_FORTIFY_SOURCE=2" --config "ld=arm-linux-gnueabihf-gcc -g -O2 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro" --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
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
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 '2.54'
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.54+dfsg'
dh_auto_build -a
perl Build
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
NOTE: Run ./Build reconfig to change existing configuration.
Building GBrowse
arm-linux-gnueabihf-gcc -I/<<BUILDDIR>>/gbrowse-2.54+dfsg/libalign -I/usr/lib/arm-linux-gnueabihf/perl/5.22/CORE -DXS_VERSION="2.54" -DVERSION="2.54" -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 -fstack-protector-strong -Wformat -Werror=format-security -g -O2 -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 -fstack-protector-strong -Wformat -Werror=format-security -Wl,-z,relro -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/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/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-2.54+dfsg/install_util/GBrowseInstall.pm line 728.
dh_auto_test -a
perl Build test --verbose 1
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 728.
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 - bin/gbrowse_change_passwd.pl compiled ok
ok 36 - bin/gbrowse_change_passwd.pl stderr said "syntax OK"
ok 37 - bin/gbrowse_change_passwd.pl nothing on stdout
ok 38 - bin/gbrowse_clean.pl compiled ok
ok 39 - bin/gbrowse_clean.pl stderr said "syntax OK"
ok 40 - bin/gbrowse_clean.pl nothing on stdout
ok 41 - bin/gbrowse_configure_slaves.pl compiled ok
ok 42 - bin/gbrowse_configure_slaves.pl stderr said "syntax OK"
ok 43 - bin/gbrowse_configure_slaves.pl nothing on stdout
ok 44 - bin/gbrowse_create_account.pl compiled ok
ok 45 - bin/gbrowse_create_account.pl stderr said "syntax OK"
ok 46 - bin/gbrowse_create_account.pl nothing on stdout
ok 47 # skip explicitly skipping bin/gbrowse_grow_cloud_vol.pl
ok 48 - bin/gbrowse_import_ucsc_db.pl compiled ok
ok 49 - bin/gbrowse_import_ucsc_db.pl stderr said "syntax OK"
ok 50 - bin/gbrowse_import_ucsc_db.pl nothing on stdout
ok 51 # skip explicitly skipping bin/gbrowse_launch_aws_slaves.pl
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 - bin/gtf2gff3.pl compiled ok
ok 71 - bin/gtf2gff3.pl stderr said "syntax OK"
ok 72 - bin/gtf2gff3.pl nothing on stdout
ok 73 - bin/load_genbank.pl compiled ok
ok 74 - bin/load_genbank.pl stderr said "syntax OK"
ok 75 - bin/load_genbank.pl nothing on stdout
ok 76 # skip explicitly skipping bin/make_das_conf.pl
ok 77 - bin/process_bamfiles.pl compiled ok
ok 78 - bin/process_bamfiles.pl stderr said "syntax OK"
ok 79 - bin/process_bamfiles.pl nothing on stdout
ok 80 - bin/process_gadfly.pl compiled ok
ok 81 - bin/process_gadfly.pl stderr said "syntax OK"
ok 82 - bin/process_gadfly.pl nothing on stdout
ok 83 - bin/process_ncbi_human.pl compiled ok
ok 84 - bin/process_ncbi_human.pl stderr said "syntax OK"
ok 85 - bin/process_ncbi_human.pl nothing on stdout
ok 86 - bin/process_sgd.pl compiled ok
ok 87 - bin/process_sgd.pl stderr said "syntax OK"
ok 88 - bin/process_sgd.pl nothing on stdout
ok 89 - bin/report_missing_language_tags.pl compiled ok
ok 90 - bin/report_missing_language_tags.pl stderr said "syntax OK"
ok 91 - bin/report_missing_language_tags.pl nothing on stdout
ok 92 - bin/scan_gbrowse.pl compiled ok
ok 93 - bin/scan_gbrowse.pl stderr said "syntax OK"
ok 94 - bin/scan_gbrowse.pl nothing on stdout
ok 95 - bin/ucsc_genes2gff.pl compiled ok
ok 96 - bin/ucsc_genes2gff.pl stderr said "syntax OK"
ok 97 - bin/ucsc_genes2gff.pl nothing on stdout
ok 98 - bin/wiggle2gff3.pl compiled ok
ok 99 - bin/wiggle2gff3.pl stderr said "syntax OK"
ok 100 - bin/wiggle2gff3.pl nothing on stdout
1..100
ok
t/01.yeast.t ..............
1..7
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
t/02.rearchitecture.t .....
1..90
ok 1
ok 2
ok 3
ok 4
ok 5
ok 6
ok 7
ok 8
ok 9
ok 10
ok 11
ok 12
ok 13
ok 14
ok 15
ok 16
ok 17
ok 18
ok 19
ok 20
ok 21
ok 22
ok 23
ok 24
ok 25
ok 26
ok 27
ok 28
ok 29
ok 30
ok 31
ok 32
ok 33
ok 34
ok 35
ok 36
ok 37
ok 38
ok 39
ok 40
ok 41
ok 42
ok 43
ok 44
ok 45
ok 46
ok 47
ok 48
ok 49
ok 50
ok 51
ok 52
ok 53
ok 54
ok 55
ok 56
ok 57
ok 58
ok 59
ok 60
ok 61
ok 62
ok 63
ok 64
ok 65
ok 66
ok 67
ok 68
ok 69
ok 70
ok 71
ok 72
ok 73
ok 74
ok 75
ok 76
ok 77
ok 78
ok 79
ok 80
ok 81
ok 82
ok 83
ok 84
ok 85
ok 86
ok 87
ok 88
ok 89
ok 90
ok
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
t/03.render.t ............. skipped: (no reason given)
Sometimes this test gets 'stuck'. If this happens, kill the test and Build test again.
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
t/04.remoteserver.t ....... skipped: (no reason given)
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
CGI::param called in list context from /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/Render.pm line 2348, this can lead to vulnerabilities. See the warning in "Fetching the value or values of a single named parameter" at /usr/share/perl5/CGI.pm line 407.
CGI::param called in list context from /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/Render/Slave.pm line 271, this can lead to vulnerabilities. See the warning in "Fetching the value or values of a single named parameter" at /usr/share/perl5/CGI.pm line 407, <STDIN> line 1.
CGI::param called in list context from /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/Render/Slave.pm line 271, this can lead to vulnerabilities. See the warning in "Fetching the value or values of a single named parameter" at /usr/share/perl5/CGI.pm line 407, <STDIN> line 1.
t/05.deferredrendering.t ..
1..19
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Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
t/06.featuresearch.t ...... skipped: (no reason given)
Unescaped left brace in regex is deprecated, passed through in regex; marked by <-- HERE in m/\$ENV{ <-- HERE (\w+)}/ at /<<BUILDDIR>>/gbrowse-2.54+dfsg/t/../lib/Bio/Graphics/Browser2/DataSource.pm line 963, <DATA> line 192.
t/07.karyotype.t ..........
1..3
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ok
t/08.calign.t .............
1..6
# Running under perl version 5.022002 for linux
# Current time local: Tue Jul 5 23:07:54 2016
# Current time GMT: Tue Jul 5 23:07:54 2016
# Using Test.pm version 1.26
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ok
All tests successful.
Files=9, Tests=225, 94 wallclock secs ( 0.35 usr 0.13 sys + 81.89 cusr 6.85 csys = 89.22 CPU)
Result: PASS
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-2.54+dfsg'
# svn(-buildpackage) seems to ignore the x bit
chmod +x debian/gbrowse-calign.dirs
dh_installdirs
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.54+dfsg'
debian/rules override_dh_auto_install
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.54+dfsg'
./Build --install_base=debian/gbrowse debianinstall
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
NOTE: Run ./Build reconfig to change existing configuration.
Use of uninitialized value in pattern match (m//) at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 728.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
Installing debian/gbrowse/man/man1/gbrowse_grow_cloud_vol.pl.1p
Installing debian/gbrowse/man/man1/bed2gff3.pl.1p
Installing debian/gbrowse/man/man1/load_genbank.pl.1p
Installing debian/gbrowse/man/man1/make_das_conf.pl.1p
Installing debian/gbrowse/man/man1/gtf2gff3.pl.1p
Installing debian/gbrowse/man/man1/wiggle2gff3.pl.1p
Installing debian/gbrowse/man/man1/ucsc_genes2gff.pl.1p
Installing debian/gbrowse/man/man1/gbrowse_clean.pl.1p
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/das
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbgff
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_details
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_gmap
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_key_img
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_login
Installing debian/gbrowse/usr/lib/cgi-bin/gbrowse/gbrowse_syn
Installing debian/gbrowse/etc/gbrowse/detail_select_menu.conf
Installing debian/gbrowse/etc/gbrowse/enzymes.txt
Installing debian/gbrowse/etc/gbrowse/GBrowse.conf
Installing debian/gbrowse/etc/gbrowse/log4perl.conf
Installing debian/gbrowse/etc/gbrowse/pop_demo.conf
Installing debian/gbrowse/etc/gbrowse/renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/slave_preload.conf
Installing debian/gbrowse/etc/gbrowse/submitter_plugin.conf
Installing debian/gbrowse/etc/gbrowse/volvox.conf
Installing debian/gbrowse/etc/gbrowse/yeast_chr1+2.conf
Installing debian/gbrowse/etc/gbrowse/yeast_renderfarm.conf
Installing debian/gbrowse/etc/gbrowse/yeast_simple.conf
Installing debian/gbrowse/etc/gbrowse/languages/de.pm
Installing debian/gbrowse/etc/gbrowse/languages/en.pm
Installing debian/gbrowse/etc/gbrowse/languages/es.pm
Installing debian/gbrowse/etc/gbrowse/languages/fr.pm
Installing debian/gbrowse/etc/gbrowse/languages/is.pm
Installing debian/gbrowse/etc/gbrowse/languages/it.pm
Installing debian/gbrowse/etc/gbrowse/languages/ja.pm
Installing debian/gbrowse/etc/gbrowse/languages/ko.pm
Installing debian/gbrowse/etc/gbrowse/languages/nl.pm
Installing debian/gbrowse/etc/gbrowse/languages/pl.pm
Installing debian/gbrowse/etc/gbrowse/languages/POSIX.pm
Installing debian/gbrowse/etc/gbrowse/languages/ru.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh.pm
Installing debian/gbrowse/etc/gbrowse/languages/zh_cn.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_gif_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/b64_encoded_jpeg_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/GbrowseServices.PMS
Installing debian/gbrowse/etc/gbrowse/MobyServices/moby.conf
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_formatted_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_html_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_plain_renderer.pm
Installing debian/gbrowse/etc/gbrowse/MobyServices/text_xml_renderer.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Aligner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AlignTwoSequences.pm
Installing debian/gbrowse/etc/gbrowse/plugins/AttributeHiliter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/BatchDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Blat.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CMapDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/CreateBlastDB.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FastaDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FBTableDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/FilterTest.pm
Installing debian/gbrowse/etc/gbrowse/plugins/GeneFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/LDAPAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/OligoFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PamAuthenticate.pm
Installing debian/gbrowse/etc/gbrowse/plugins/PrimerDesigner.pm
Installing debian/gbrowse/etc/gbrowse/plugins/ProteinDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RandomGene.pm
Installing debian/gbrowse/etc/gbrowse/plugins/RestrictionAnnotator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SequenceDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SimpleTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SinWave.pm
Installing debian/gbrowse/etc/gbrowse/plugins/SourceTrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Spectrogram.pm
Installing debian/gbrowse/etc/gbrowse/plugins/Submitter.pm
Installing debian/gbrowse/etc/gbrowse/plugins/test.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestAuthenticator.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TestFinder.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackDumper.pm
Installing debian/gbrowse/etc/gbrowse/plugins/TrackFinder.pm
Installing debian/gbrowse/etc/gbrowse/synteny/oryza.synconf.disabled
Installing debian/gbrowse/etc/gbrowse/synteny/rice_synteny.conf
Installing debian/gbrowse/etc/gbrowse/synteny/wild_rice_synteny.conf
Installing debian/gbrowse/etc/gbrowse/themes/solid_gray_colors
Installing debian/gbrowse/etc/gbrowse/themes/transparent_colors
Installing debian/gbrowse/etc/gbrowse/themes/warm_colors
Installing debian/gbrowse/var/lib/gbrowse/databases/admin_uploads/README
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/alignments/rice.aln.gz
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/rice/rice.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/gbrowse_syn/wild_rice/wild_rice.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/human_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/mouse_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/ideograms/rat_cytobands.gff
Installing debian/gbrowse/var/lib/gbrowse/databases/pop_demo/pop_demo.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_chr1+2/yeast_chr1+2.gff3
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr1.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chr2.fa
Installing debian/gbrowse/var/lib/gbrowse/databases/yeast_scaffolds/chromosomes.gff3
Installing debian/gbrowse/usr/share/gbrowse/htdocs/annotation_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/cloud_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_karyotype_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gbrowse_syn_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/general_help.html.zh
Installing debian/gbrowse/usr/share/gbrowse/htdocs/gmod_cog.jpeg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/vbox_index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_autocomplete.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_elements.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_solid.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_transparent.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/gbrowse_warm.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/karyotype.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/menulink.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/menulink_active.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/snapshots.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/subtracktable.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/titlebar-default.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/titlebar-safari.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/tracks.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/default_theme.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/dropdown.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/helper.css
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/favicon.ico
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/icon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-down.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up-on.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up-open.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/nav-arrow-up.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern1.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/css/dropdown/images/pattern3.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_get_sessionid.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_new_sessionid.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_upload_data.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/gbrowse_upload_file.pl
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/index.html
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/README
Installing debian/gbrowse/usr/share/gbrowse/htdocs/example_scripts/test_file.bed
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/cloud.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/lrock005.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/backgrounds/steel.jpg
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/balloon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/balloon_ie.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/close.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/down_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/down_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/up_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GBubble/up_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/balloon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/close.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/down_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/down_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/up_left.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/balloons/GPlain/up_right.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ajax-loader.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/blue_peaks.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/check.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/cursor-ewmove.ico
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/dark_0.4_pixel.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/download.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/empty.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ex.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ficon.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/ficon_2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/fmini.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/fmini_2.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/green_l2.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/grey.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/grey_0.4_pixel.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/menu.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/minus.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/minus12.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/opacity_thumb.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/open_open.png
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/query.png
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/red.gif
Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/red1.gif
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Installing debian/gbrowse/usr/share/gbrowse/htdocs/images/buttons/square.xpm
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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/SnapshotManager.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/Login.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/DataLoader/bed.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/bam.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/gff.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/sam.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/wiggle.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/TrackDumper/RichSeqMaker.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Database.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/UserTracks/Filesystem.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/Graphics/Browser2/Plugin/AuthPlugin.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/Tagger.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/GFF/Aggregator/wormbase_gene.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/GFF/Aggregator/waba_alignment.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/GFF/Aggregator/reftranscript.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/Bio/DB/GFF/Aggregator/match_gap.pm
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/SeqFeature/Store/Alias.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/DB/Tagger/Tag.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/Util.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/PageSettings.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/DB/SyntenyIO.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/CGI/Toggle.pm
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/GBrowse/ConfigData.pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin::AuthPlugin.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::match_gap.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::reftranscript.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Plugin.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RegionSearch.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Render.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataBase.3pm
Installing debian/gbrowse/man/man3/Bio::DB::SeqFeature::Store::Alias.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::AuthorizedFeatureFile.3pm
Installing debian/gbrowse/man/man3/GBrowse::ConfigData.3pm
Installing debian/gbrowse/man/man3/CGI::Toggle.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::wormbase_gene.3pm
Installing debian/gbrowse/man/man3/Legacy::Graphics::Browser.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::DataSource.3pm
Installing debian/gbrowse/man/man3/Bio::DB::GFF::Aggregator::waba_alignment.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::GFFhelper.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RenderPanels.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Region.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::OptionPick.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Markup.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Util.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger::Tag.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::CAlign.3pm
Installing debian/gbrowse/man/man3/Bio::DB::Tagger.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PluginSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::RemoteSet.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::Realign.3pm
Installing debian/gbrowse/man/man3/Bio::Graphics::Browser2::PadAlignment.3pm
Installing debian/gbrowse/bin/gbrowse_grow_cloud_vol.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignment_database.pl
Installing debian/gbrowse/bin/ucsc_genes2gff.pl
Installing debian/gbrowse/bin/gtf2gff3.pl
Installing debian/gbrowse/bin/make_das_conf.pl
Installing debian/gbrowse/bin/scan_gbrowse.pl
Installing debian/gbrowse/bin/gbrowse_configure_slaves.pl
Installing debian/gbrowse/bin/gbrowse_metadb_config.pl
Installing debian/gbrowse/bin/gbrowse_launch_aws_slaves.pl
Installing debian/gbrowse/bin/gbrowse_set_admin_passwd.pl
Installing debian/gbrowse/bin/gbrowse_clean.pl
Installing debian/gbrowse/bin/gbrowse_create_account.pl
Installing debian/gbrowse/bin/gbrowse_syn_load_alignments_msa.pl
Installing debian/gbrowse/bin/gbrowse_slave
Installing debian/gbrowse/bin/bed2gff3.pl
Installing debian/gbrowse/bin/gbrowse_change_passwd.pl
Installing debian/gbrowse/bin/gbrowse_import_ucsc_db.pl
Installing debian/gbrowse/bin/load_genbank.pl
Installing debian/gbrowse/bin/wiggle2gff3.pl
#./Build apache_conf > debian/gbrowse/etc/gbrowse/gbrowse_apache2.conf
perl Build.PL --conf=/etc/gbrowse --htdocs=/usr/share/gbrowse/htdocs --tmp=/var/cache/gbrowse --databases=/var/lib/gbrowse/databases --cgibin=/usr/lib/cgi-bin/gbrowse --www-user=www-data --registration_done=1 --persistent=/var/lib/gbrowse --installetc=y
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
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 '2.54'
./Build --install_base=debian/gbrowse install_slave
Possible precedence issue with control flow operator at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 1032.
NOTE: Run ./Build reconfig to change existing configuration.
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/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-slave
Performing variable substitutions in blib/etc/init.d/gbrowse-slave
Use of uninitialized value $wwwuser in substitution (s///) at /<<BUILDDIR>>/gbrowse-2.54+dfsg/install_util/GBrowseInstall.pm line 821, <GEN89> line 20.
Building GBrowse
Files found in blib/arch: installing files in blib/lib into architecture dependent library tree
Installing debian/gbrowse/etc/default/gbrowse-slave
Installing debian/gbrowse/etc/init.d/gbrowse-slave
Installing debian/gbrowse/lib/perl5/arm-linux-gnueabihf-thread-multi-64int/GBrowse/ConfigData.pm
mv debian/gbrowse/lib/perl5/* debian/gbrowse/usr/share/perl5
# Remove arch dependant data
mkdir -p debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/CAlign/
mkdir -p debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.22/Bio/Graphics/Browser2/
mv debian/gbrowse/usr/share/perl5/auto/Bio/Graphics/Browser2/CAlign/* debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/CAlign/
mv debian/gbrowse/usr/share/perl5/Bio/Graphics/Browser2/CAlign.pm debian/gbrowse-calign/usr/lib/arm-linux-gnueabihf/perl5/5.22/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
#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-2.54+dfsg/debian/gbrowse/etc -name '*.new' | xargs file-rename 's/.new//'
rm -rf /<<BUILDDIR>>/gbrowse-2.54+dfsg/debian/gbrowse/usr/share/perl5/auto
# Update conf files
sed -i 's/gbrowse2/gbrowse/g' /<<BUILDDIR>>/gbrowse-2.54+dfsg/debian/gbrowse/etc/gbrowse/yeast*.conf
sed -i 's/gbrowse2/gbrowse/g' /<<BUILDDIR>>/gbrowse-2.54+dfsg/debian/gbrowse/etc/gbrowse/slave*.conf
make[1]: Leaving directory '/<<BUILDDIR>>/gbrowse-2.54+dfsg'
dh_apache2 -a
dh_installdocs -a
dh_installchangelogs -a
debian/rules override_dh_installman
make[1]: Entering directory '/<<BUILDDIR>>/gbrowse-2.54+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-2.54+dfsg'
dh_perl -a
dh_link -a
dh_strip_nondeterminism -a
dh_compress -a
dh_fixperms -a
dh_strip -a
dh_makeshlibs -a
dh_shlibdeps -a
dh_installdeb -a
dh_gencontrol -a
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dpkg-gencontrol: warning: File::FcntlLock not available; using flock which is not NFS-safe
dh_md5sums -a
dh_builddeb -a
dpkg-deb: building package 'gbrowse-calign-dbgsym' in '../gbrowse-calign-dbgsym_2.54+dfsg-7_armhf.deb'.
dpkg-deb: building package 'gbrowse-calign' in '../gbrowse-calign_2.54+dfsg-7_armhf.deb'.
dpkg-genchanges --build=any -mRaspbian wandboard test autobuilder <root@raspbian.org> >../gbrowse_2.54+dfsg-7_armhf.changes
dpkg-genchanges: warning: package gbrowse-calign-dbgsym listed in files list but not in control info
dpkg-genchanges: info: binary-only arch-specific upload (source code and arch-indep packages not included)
dpkg-source --after-build gbrowse-2.54+dfsg
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 20160705-2308
Finished
--------
I: Built successfully
+------------------------------------------------------------------------------+
| Post Build Chroot |
+------------------------------------------------------------------------------+
+------------------------------------------------------------------------------+
| Changes |
+------------------------------------------------------------------------------+
gbrowse_2.54+dfsg-7_armhf.changes:
----------------------------------
Format: 1.8
Date: Wed, 29 Jun 2016 09:44:25 +0200
Source: gbrowse
Binary: gbrowse gbrowse-data gbrowse-calign
Architecture: armhf
Version: 2.54+dfsg-7
Distribution: stretch-staging
Urgency: medium
Maintainer: Raspbian wandboard test autobuilder <root@raspbian.org>
Changed-By: Andreas Tille <tille@debian.org>
Description:
gbrowse - GMOD Generic Genome Browser
gbrowse-calign - CAlign helper
gbrowse-data - Sample data to use GBrowse
Changes:
gbrowse (2.54+dfsg-7) unstable; urgency=medium
.
* Moved packaging from SVN to Git
* cme fix dpkg-control
* Add myself to uploaders
* Testsuite: autopkgtest-pkg-perl
Checksums-Sha1:
0d0a9ea5b296cd7c7802d2a48fe64f43f3466148 25338 gbrowse-calign-dbgsym_2.54+dfsg-7_armhf.deb
b5f9a7851f374b3f798309431119d5d6494e2203 34354 gbrowse-calign_2.54+dfsg-7_armhf.deb
Checksums-Sha256:
a236f8067ad145e52e59de4ff50b13c4771ca81c6fdf4a02065bec79eae8624d 25338 gbrowse-calign-dbgsym_2.54+dfsg-7_armhf.deb
832daef26e696a7b81aa1bdb1fb709268dfafc5aa0fb4a8fec3c3733e97fdb25 34354 gbrowse-calign_2.54+dfsg-7_armhf.deb
Files:
19d0e208ee038d6b055a9b0769d38d21 25338 debug extra gbrowse-calign-dbgsym_2.54+dfsg-7_armhf.deb
30f14dca0c076d087ae2ccc804d7bd0b 34354 science optional gbrowse-calign_2.54+dfsg-7_armhf.deb
+------------------------------------------------------------------------------+
| Package contents |
+------------------------------------------------------------------------------+
gbrowse-calign-dbgsym_2.54+dfsg-7_armhf.deb
-------------------------------------------
new debian package, version 2.0.
size 25338 bytes: control archive=490 bytes.
429 bytes, 13 lines control
106 bytes, 1 lines md5sums
Package: gbrowse-calign-dbgsym
Source: gbrowse
Version: 2.54+dfsg-7
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 38
Depends: gbrowse-calign (= 2.54+dfsg-7)
Section: debug
Priority: extra
Homepage: http://www.gbrowse.org/
Description: Debug symbols for gbrowse-calign
Auto-Built-Package: debug-symbols
Build-Ids: a525f00579829105436bb97f7c4398d8dde6943c
drwxr-xr-x root/root 0 2016-07-05 23:08 ./
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/debug/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/debug/.build-id/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/debug/.build-id/a5/
-rw-r--r-- root/root 27756 2016-07-05 23:08 ./usr/lib/debug/.build-id/a5/25f00579829105436bb97f7c4398d8dde6943c.debug
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/doc/
lrwxrwxrwx root/root 0 2016-07-05 23:08 ./usr/share/doc/gbrowse-calign-dbgsym -> gbrowse-calign
gbrowse-calign_2.54+dfsg-7_armhf.deb
------------------------------------
new debian package, version 2.0.
size 34354 bytes: control archive=754 bytes.
454 bytes, 13 lines control
663 bytes, 7 lines md5sums
Package: gbrowse-calign
Source: gbrowse
Version: 2.54+dfsg-7
Architecture: armhf
Maintainer: Debian Med Packaging Team <debian-med-packaging@lists.alioth.debian.org>
Installed-Size: 74
Depends: perl (>= 5.22.2-1), perlapi-5.22.2, libc6 (>= 2.4), gbrowse
Section: science
Priority: optional
Homepage: http://www.gbrowse.org/
Description: CAlign helper
This package provides the CAlign helper
for use with Realign. It speeds up Smith-Waterman alignment.
drwxr-xr-x root/root 0 2016-07-05 23:08 ./
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/Bio/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/Bio/Graphics/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/Bio/Graphics/Browser2/
-rw-r--r-- root/root 1129 2016-07-05 23:06 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/Bio/Graphics/Browser2/CAlign.pm
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/
drwxr-xr-x root/root 0 2016-07-05 23:07 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/CAlign/
-rw-r--r-- root/root 0 2016-07-05 23:06 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/CAlign/CAlign.bs
-rw-r--r-- root/root 9656 2016-07-05 23:08 ./usr/lib/arm-linux-gnueabihf/perl5/5.22/auto/Bio/Graphics/Browser2/CAlign/CAlign.so
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/doc/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/doc/gbrowse-calign/
-rw-r--r-- root/root 1635 2016-06-29 07:45 ./usr/share/doc/gbrowse-calign/changelog.Debian.gz
-rw-r--r-- root/root 18924 2012-12-11 15:44 ./usr/share/doc/gbrowse-calign/changelog.gz
-rw-r--r-- root/root 17978 2016-06-29 07:45 ./usr/share/doc/gbrowse-calign/copyright
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/man/
drwxr-xr-x root/root 0 2016-07-05 23:08 ./usr/share/man/man3/
-rw-r--r-- root/root 2161 2016-07-05 23:08 ./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: 31536
Build-Time: 169
Distribution: stretch-staging
Host Architecture: armhf
Install-Time: 604
Job: gbrowse_2.54+dfsg-7
Machine Architecture: armhf
Package: gbrowse
Package-Time: 891
Source-Version: 2.54+dfsg-7
Space: 31536
Status: successful
Version: 2.54+dfsg-7
--------------------------------------------------------------------------------
Finished at 20160705-2308
Build needed 00:14:51, 31536k disc space