Bug#987095: Low-hanging fruits reminder for 2021-04-21, 19:00 UTC (tomorrow)
Étienne Mollier
etienne.mollier at mailoo.org
Thu Apr 22 21:10:07 BST 2021
Oops, I managed to forget to attach the output, adding it to the
report.
--
Étienne Mollier <etienne.mollier at mailoo.org>
Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da
Sent from /dev/pts/1, please excuse my verbosity.
-------------- next part --------------
sbuild (Debian sbuild) 0.81.2 (31 January 2021) on fusion
+==============================================================================+
| libchado-perl 1.31-7 (amd64) Thu, 22 Apr 2021 18:32:29 +0000 |
+==============================================================================+
Package: libchado-perl
Version: 1.31-7
Source Version: 1.31-7
Distribution: unstable
Machine Architecture: amd64
Host Architecture: amd64
Build Architecture: amd64
Build Type: binary
I: NOTICE: Log filtering will replace 'var/run/schroot/mount/sid-amd64-sbuild-d705e414-de0c-4f8c-acd0-db77709f5fb6' with '<<CHROOT>>'
I: NOTICE: Log filtering will replace 'build/libchado-perl-s46Uoh/resolver-nCQprt' with '<<RESOLVERDIR>>'
[...]
+------------------------------------------------------------------------------+
| Install package build dependencies |
+------------------------------------------------------------------------------+
Setup apt archive
-----------------
Merged Build-Depends: debhelper (>= 11~), build-essential, fakeroot, perl, libclass-dbi-pg-perl, libxml-libxslt-perl, liblog-log4perl-perl, bioperl, libgo-perl, libdbd-pg-perl, libdbi-perl, libgd-gd2-perl, libdigest-md5-file-perl, libdata-stag-perl, libxml-perl, libclass-dbi-perl, libclass-dbi-pager-perl, libxml-simple-perl, libwww-perl, libtemplate-perl, libcgi-session-perl, libsql-translator-perl, libdbix-dbstag-perl, libmodule-build-perl
Filtered Build-Depends: debhelper (>= 11~), build-essential, fakeroot, perl, libclass-dbi-pg-perl, libxml-libxslt-perl, liblog-log4perl-perl, bioperl, libgo-perl, libdbd-pg-perl, libdbi-perl, libgd-gd2-perl, libdigest-md5-file-perl, libdata-stag-perl, libxml-perl, libclass-dbi-perl, libclass-dbi-pager-perl, libxml-simple-perl, libwww-perl, libtemplate-perl, libcgi-session-perl, libsql-translator-perl, libdbix-dbstag-perl, libmodule-build-perl
dpkg-deb: building package 'sbuild-build-depends-main-dummy' in '/<<RESOLVERDIR>>/apt_archive/sbuild-build-depends-main-dummy.deb'.
Ign:1 copy:/<<RESOLVERDIR>>/apt_archive ./ InRelease
Get:2 copy:/<<RESOLVERDIR>>/apt_archive ./ Release [963 B]
Ign:3 copy:/<<RESOLVERDIR>>/apt_archive ./ Release.gpg
Get:4 copy:/<<RESOLVERDIR>>/apt_archive ./ Sources [509 B]
Get:5 copy:/<<RESOLVERDIR>>/apt_archive ./ Packages [588 B]
Fetched 2060 B in 0s (0 B/s)
Reading package lists...
Reading package lists...
Install main build dependencies (apt-based resolver)
----------------------------------------------------
Installing build dependencies
Reading package lists...
Building dependency tree...
Reading state information...
The following additional packages will be installed:
autoconf automake autopoint autotools-dev bioperl bsdextrautils
ca-certificates debhelper dh-autoreconf dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz
groff-base intltool-debian libalgorithm-diff-perl libann0 libappconfig-perl
libarchive-zip-perl libb-hooks-op-check-perl libbio-perl-perl libbrotli1
libbsd0 libcairo2 libcapture-tiny-perl libcarp-clan-perl libcdt5
libcgi-pm-perl libcgi-session-perl libcgraph6 libclass-accessor-chained-perl
libclass-accessor-perl libclass-data-inheritable-perl
libclass-dbi-pager-perl libclass-dbi-perl libclass-dbi-pg-perl
libclass-inspector-perl libclass-makemethods-perl
libclass-method-modifiers-perl libclass-trigger-perl libclone-perl
libdata-page-perl libdata-stag-perl libdatrie1 libdbd-pg-perl libdbi-perl
libdbix-contextualfetch-perl libdbix-dbschema-perl libdbix-dbstag-perl
libdebhelper-perl libdeflate0 libdevel-callchecker-perl
libdevel-stacktrace-perl libdigest-md5-file-perl
libdynaloader-functions-perl libelf1 libencode-locale-perl
libexception-class-perl libexpat1 libexporter-lite-perl libfile-listing-perl
libfile-sharedir-perl libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libfreezethaw-perl libfribidi0 libgd-perl libgd3 libglib2.0-0
libgo-perl libgraphite2-3 libgraphviz-perl libgts-0.7-5 libgvc6 libgvpr2
libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-date-perl libhttp-message-perl
libhttp-negotiate-perl libice6 libicu67 libima-dbi-perl libimport-into-perl
libio-html-perl libio-pty-perl libio-socket-ssl-perl libio-string-perl
libio-stringy-perl libipc-run-perl libjbig0 libjpeg62-turbo liblab-gamut1
libldap-2.4-2 liblog-log4perl-perl libltdl7 liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic-mgc libmagic1 libmd0
libmodule-build-perl libmodule-runtime-perl libmoo-perl libnet-http-perl
libnet-ssleay-perl libpackage-variant-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl
libparse-recdescent-perl libpathplan4 libpipeline1 libpixman-1-0 libpng16-16
libpq5 librole-tiny-perl libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6
libsql-translator-perl libstrictures-perl libsub-name-perl
libsub-override-perl libsub-quote-perl libsub-uplevel-perl libtemplate-perl
libtest-deep-perl libtest-differences-perl libtest-exception-perl
libtest-most-perl libtest-warn-perl libtext-diff-perl libthai-data libthai0
libtiff5 libtimedate-perl libtool libtry-tiny-perl libuchardet0
libuniversal-moniker-perl liburi-perl libwebp6 libwww-perl
libwww-robotrules-perl libx11-6 libx11-data libxau6 libxaw7 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml-libxml-perl
libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl
libxml-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl
libxml-twig-perl libxml-xpath-perl libxml2 libxmu6 libxpm4 libxrender1
libxslt1.1 libxt6 libyaml-perl m4 man-db netbase openssl
perl-openssl-defaults po-debconf sensible-utils ucf x11-common
Suggested packages:
autoconf-archive gnu-standards autoconf-doc dh-make gettext-doc
libasprintf-dev libgettextpo-dev gsfonts graphviz-doc groff
libxml-sax-expatxs-perl libclass-dbi-mysql-perl libclass-dbi-sqlite-perl
libclass-dbi-loader-perl libmldbm-perl libnet-daemon-perl
libsql-statement-perl libgd-tools libdata-dump-perl libdbd-csv-perl
liblog-dispatch-filerotate-perl librrds-perl libxml-dom-perl
libcrypt-ssleay-perl libscalar-number-perl libbareword-filehandles-perl
libindirect-perl libmultidimensional-perl libtemplate-plugin-gd-perl
libtemplate-plugin-xml-perl libtool-doc gfortran | fortran95-compiler
gcj-jdk libauthen-ntlm-perl libunicode-map8-perl libunicode-string-perl
xml-twig-tools libyaml-shell-perl m4-doc apparmor less www-browser
libmail-box-perl
Recommended packages:
bioperl-run perl-doc libcache-cache-perl libbio-perl-run-perl
libapache-dbi-perl libace-perl liblist-moreutils-perl libset-scalar-perl
curl | wget | lynx fonts-liberation libalgorithm-diff-xs-perl bioperl-run
| libbio-perl-run-perl libalgorithm-munkres-perl libarray-compare-perl
libbio-asn1-entrezgene-perl libconvert-binary-c-perl libdbd-sqlite3-perl
libdbd-mysql-perl libgraph-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-sax-writer-perl libxml-writer-perl
libcgi-fast-perl libclass-dbi-abstractsearch-perl perl-tk libmldbm-perl
libarchive-cpio-perl libglib2.0-data shared-mime-info xdg-user-dirs
libxml-checker-perl xsltproc libgts-bin libhtml-format-perl libldap-common
libipc-shareable-perl liblog-dispatch-perl libmodule-signature-perl
libpod-readme-perl libsoftware-license-perl libclass-xsaccessor-perl
libnamespace-clean-perl libsasl2-modules libjson-maybexs-perl
libtext-recordparser-perl libltdl-dev liblingua-en-inflect-perl
libdata-dump-perl libhtml-form-perl libhttp-daemon-perl libmailtools-perl
libxml-sax-expat-perl libtext-iconv-perl libtie-ixhash-perl
libyaml-libyaml-perl | libyaml-syck-perl libmail-sendmail-perl
The following NEW packages will be installed:
autoconf automake autopoint autotools-dev bioperl bsdextrautils
ca-certificates debhelper dh-autoreconf dh-strip-nondeterminism dwz file
fontconfig fontconfig-config fonts-dejavu-core gettext gettext-base graphviz
groff-base intltool-debian libalgorithm-diff-perl libann0 libappconfig-perl
libarchive-zip-perl libb-hooks-op-check-perl libbio-perl-perl libbrotli1
libbsd0 libcairo2 libcapture-tiny-perl libcarp-clan-perl libcdt5
libcgi-pm-perl libcgi-session-perl libcgraph6 libclass-accessor-chained-perl
libclass-accessor-perl libclass-data-inheritable-perl
libclass-dbi-pager-perl libclass-dbi-perl libclass-dbi-pg-perl
libclass-inspector-perl libclass-makemethods-perl
libclass-method-modifiers-perl libclass-trigger-perl libclone-perl
libdata-page-perl libdata-stag-perl libdatrie1 libdbd-pg-perl libdbi-perl
libdbix-contextualfetch-perl libdbix-dbschema-perl libdbix-dbstag-perl
libdebhelper-perl libdeflate0 libdevel-callchecker-perl
libdevel-stacktrace-perl libdigest-md5-file-perl
libdynaloader-functions-perl libelf1 libencode-locale-perl
libexception-class-perl libexpat1 libexporter-lite-perl libfile-listing-perl
libfile-sharedir-perl libfile-stripnondeterminism-perl libfontconfig1
libfreetype6 libfreezethaw-perl libfribidi0 libgd-perl libgd3 libglib2.0-0
libgo-perl libgraphite2-3 libgraphviz-perl libgts-0.7-5 libgvc6 libgvpr2
libharfbuzz0b libhtml-parser-perl libhtml-tagset-perl libhtml-tree-perl
libhttp-cookies-perl libhttp-date-perl libhttp-message-perl
libhttp-negotiate-perl libice6 libicu67 libima-dbi-perl libimport-into-perl
libio-html-perl libio-pty-perl libio-socket-ssl-perl libio-string-perl
libio-stringy-perl libipc-run-perl libjbig0 libjpeg62-turbo liblab-gamut1
libldap-2.4-2 liblog-log4perl-perl libltdl7 liblwp-mediatypes-perl
liblwp-protocol-https-perl libmagic-mgc libmagic1 libmd0
libmodule-build-perl libmodule-runtime-perl libmoo-perl libnet-http-perl
libnet-ssleay-perl libpackage-variant-perl libpango-1.0-0
libpangocairo-1.0-0 libpangoft2-1.0-0 libparams-classify-perl
libparse-recdescent-perl libpathplan4 libpipeline1 libpixman-1-0 libpng16-16
libpq5 librole-tiny-perl libsasl2-2 libsasl2-modules-db libsigsegv2 libsm6
libsql-translator-perl libstrictures-perl libsub-name-perl
libsub-override-perl libsub-quote-perl libsub-uplevel-perl libtemplate-perl
libtest-deep-perl libtest-differences-perl libtest-exception-perl
libtest-most-perl libtest-warn-perl libtext-diff-perl libthai-data libthai0
libtiff5 libtimedate-perl libtool libtry-tiny-perl libuchardet0
libuniversal-moniker-perl liburi-perl libwebp6 libwww-perl
libwww-robotrules-perl libx11-6 libx11-data libxau6 libxaw7 libxcb-render0
libxcb-shm0 libxcb1 libxdmcp6 libxext6 libxml-libxml-perl
libxml-libxslt-perl libxml-namespacesupport-perl libxml-parser-perl
libxml-perl libxml-sax-base-perl libxml-sax-perl libxml-simple-perl
libxml-twig-perl libxml-xpath-perl libxml2 libxmu6 libxpm4 libxrender1
libxslt1.1 libxt6 libyaml-perl m4 man-db netbase openssl
perl-openssl-defaults po-debconf sbuild-build-depends-main-dummy
sensible-utils ucf x11-common
0 upgraded, 192 newly installed, 0 to remove and 0 not upgraded.
Need to get 45.3 MB of archives.
After this operation, 143 MB of additional disk space will be used.
Get:1 copy:/<<RESOLVERDIR>>/apt_archive ./ sbuild-build-depends-main-dummy 0.invalid.0 [1012 B]
Get:2 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 bsdextrautils amd64 2.36.1-7 [145 kB]
Get:3 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libuchardet0 amd64 0.0.7-1 [67.8 kB]
Get:4 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 groff-base amd64 1.22.4-6 [936 kB]
Get:5 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpipeline1 amd64 1.5.3-1 [34.3 kB]
Get:6 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 man-db amd64 2.9.4-2 [1354 kB]
Get:7 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 netbase all 6.3 [19.9 kB]
Get:8 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 sensible-utils all 0.0.14 [14.8 kB]
Get:9 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 openssl amd64 1.1.1k-1 [850 kB]
Get:10 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 ca-certificates all 20210119 [158 kB]
Get:11 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmagic-mgc amd64 1:5.39-3 [273 kB]
Get:12 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmagic1 amd64 1:5.39-3 [126 kB]
Get:13 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 file amd64 1:5.39-3 [69.1 kB]
Get:14 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 gettext-base amd64 0.21-4 [175 kB]
Get:15 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 ucf all 3.0043 [74.0 kB]
Get:16 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsigsegv2 amd64 2.13-1 [34.8 kB]
Get:17 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 m4 amd64 1.4.18-5 [204 kB]
Get:18 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 autoconf all 2.69-14 [313 kB]
Get:19 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 autotools-dev all 20180224.1+nmu1 [77.1 kB]
Get:20 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 automake all 1:1.16.3-2 [814 kB]
Get:21 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 autopoint all 0.21-4 [510 kB]
Get:22 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libio-string-perl all 1.08-3.1 [11.8 kB]
Get:23 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdata-stag-perl all 0.14-2 [448 kB]
Get:24 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libbio-perl-perl all 1.7.7-2 [2607 kB]
Get:25 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-data-inheritable-perl all 0.08-3 [8588 B]
Get:26 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdevel-stacktrace-perl all 2.0400-1 [28.6 kB]
Get:27 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libexception-class-perl all 1.44-1 [32.3 kB]
Get:28 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtest-deep-perl all 1.130-1 [49.3 kB]
Get:29 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcapture-tiny-perl all 0.48-1 [26.0 kB]
Get:30 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libalgorithm-diff-perl all 1.201-1 [43.3 kB]
Get:31 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtext-diff-perl all 1.45-1 [27.7 kB]
Get:32 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtest-differences-perl all 0.67-1 [18.7 kB]
Get:33 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsub-uplevel-perl all 0.2800-1.1 [16.5 kB]
Get:34 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtest-exception-perl all 0.43-1 [18.7 kB]
Get:35 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtest-warn-perl all 0.36-1 [16.2 kB]
Get:36 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtest-most-perl all 0.37-1 [24.9 kB]
Get:37 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 bioperl all 1.7.7-2 [246 kB]
Get:38 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdebhelper-perl all 13.3.4 [189 kB]
Get:39 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtool all 2.4.6-15 [513 kB]
Get:40 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 dh-autoreconf all 20 [17.1 kB]
Get:41 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libarchive-zip-perl all 1.68-1 [104 kB]
Get:42 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsub-override-perl all 0.09-2 [10.2 kB]
Get:43 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfile-stripnondeterminism-perl all 1.11.0-1 [25.6 kB]
Get:44 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 dh-strip-nondeterminism all 1.11.0-1 [15.3 kB]
Get:45 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libelf1 amd64 0.183-3 [165 kB]
Get:46 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 dwz amd64 0.14-1 [98.3 kB]
Get:47 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libicu67 amd64 67.1-6 [8625 kB]
Get:48 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml2 amd64 2.9.10+dfsg-6.3+b1 [693 kB]
Get:49 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 gettext amd64 0.21-4 [1311 kB]
Get:50 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 intltool-debian all 0.35.0+20060710.5 [26.8 kB]
Get:51 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 po-debconf all 1.0.21+nmu1 [248 kB]
Get:52 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 debhelper all 13.3.4 [1049 kB]
Get:53 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libexpat1 amd64 2.2.10-2 [96.9 kB]
Get:54 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libbrotli1 amd64 1.0.9-2+b2 [279 kB]
Get:55 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpng16-16 amd64 1.6.37-3 [294 kB]
Get:56 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfreetype6 amd64 2.10.4+dfsg-1 [418 kB]
Get:57 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 fonts-dejavu-core all 2.37-2 [1069 kB]
Get:58 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 fontconfig-config all 2.13.1-4.2 [281 kB]
Get:59 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfontconfig1 amd64 2.13.1-4.2 [347 kB]
Get:60 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 fontconfig amd64 2.13.1-4.2 [417 kB]
Get:61 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libann0 amd64 1.1.2+doc-7 [25.3 kB]
Get:62 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcdt5 amd64 2.42.2-4+b2 [62.4 kB]
Get:63 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcgraph6 amd64 2.42.2-4+b2 [85.8 kB]
Get:64 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libjpeg62-turbo amd64 1:2.0.6-4 [151 kB]
Get:65 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdeflate0 amd64 1.7-1 [53.1 kB]
Get:66 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libjbig0 amd64 2.1-3.1+b2 [31.0 kB]
Get:67 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libwebp6 amd64 0.6.1-2+b1 [261 kB]
Get:68 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtiff5 amd64 4.2.0-1 [289 kB]
Get:69 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxau6 amd64 1:1.0.9-1 [19.7 kB]
Get:70 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmd0 amd64 1.0.3-3 [28.0 kB]
Get:71 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libbsd0 amd64 0.11.3-1 [108 kB]
Get:72 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxdmcp6 amd64 1:1.1.2-3 [26.3 kB]
Get:73 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxcb1 amd64 1.14-3 [140 kB]
Get:74 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libx11-data all 2:1.7.0-2 [310 kB]
Get:75 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libx11-6 amd64 2:1.7.0-2 [771 kB]
Get:76 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxpm4 amd64 1:3.5.12-1 [49.1 kB]
Get:77 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgd3 amd64 2.3.0-2 [137 kB]
Get:78 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libglib2.0-0 amd64 2.66.8-1 [1370 kB]
Get:79 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgts-0.7-5 amd64 0.7.6+darcs121130-4+b1 [158 kB]
Get:80 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpixman-1-0 amd64 0.40.0-1 [543 kB]
Get:81 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxcb-render0 amd64 1.14-3 [111 kB]
Get:82 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxcb-shm0 amd64 1.14-3 [101 kB]
Get:83 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxext6 amd64 2:1.3.3-1.1 [52.7 kB]
Get:84 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxrender1 amd64 1:0.9.10-1 [33.0 kB]
Get:85 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcairo2 amd64 1.16.0-5 [694 kB]
Get:86 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libltdl7 amd64 2.4.6-15 [391 kB]
Get:87 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfribidi0 amd64 1.0.8-2 [64.8 kB]
Get:88 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgraphite2-3 amd64 1.3.14-1 [81.2 kB]
Get:89 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libharfbuzz0b amd64 2.7.4-1 [1471 kB]
Get:90 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libthai-data all 0.1.28-4 [171 kB]
Get:91 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdatrie1 amd64 0.2.13-1 [42.7 kB]
Get:92 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libthai0 amd64 0.1.28-4 [54.4 kB]
Get:93 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpango-1.0-0 amd64 1.46.2-3 [191 kB]
Get:94 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpangoft2-1.0-0 amd64 1.46.2-3 [62.2 kB]
Get:95 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpangocairo-1.0-0 amd64 1.46.2-3 [50.6 kB]
Get:96 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpathplan4 amd64 2.42.2-4+b2 [64.5 kB]
Get:97 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgvc6 amd64 2.42.2-4+b2 [695 kB]
Get:98 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgvpr2 amd64 2.42.2-4+b2 [212 kB]
Get:99 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 liblab-gamut1 amd64 2.42.2-4+b2 [221 kB]
Get:100 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 x11-common all 1:7.7+22 [252 kB]
Get:101 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libice6 amd64 2:1.0.10-1 [58.5 kB]
Get:102 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsm6 amd64 2:1.2.3-1 [35.1 kB]
Get:103 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxt6 amd64 1:1.2.0-1 [189 kB]
Get:104 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxmu6 amd64 2:1.1.2-2+b3 [60.8 kB]
Get:105 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxaw7 amd64 2:1.0.13-1.1 [202 kB]
Get:106 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 graphviz amd64 2.42.2-4+b2 [632 kB]
Get:107 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libappconfig-perl all 1.71-2.1 [67.6 kB]
Get:108 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libb-hooks-op-check-perl amd64 0.22-1+b3 [11.3 kB]
Get:109 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcarp-clan-perl all 6.08-1 [15.6 kB]
Get:110 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhtml-tagset-perl all 3.20-4 [13.0 kB]
Get:111 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 liburi-perl all 5.08-1 [90.6 kB]
Get:112 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhtml-parser-perl amd64 3.76-1 [105 kB]
Get:113 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcgi-pm-perl all 4.51-1 [224 kB]
Get:114 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libcgi-session-perl all 4.48-3 [119 kB]
Get:115 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsub-name-perl amd64 0.26-1+b1 [13.8 kB]
Get:116 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-accessor-perl all 0.51-1 [23.2 kB]
Get:117 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-accessor-chained-perl all 0.01.1~debian-4 [8300 B]
Get:118 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdbi-perl amd64 1.643-3+b1 [780 kB]
Get:119 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdbix-contextualfetch-perl all 1.03-4.1 [8584 B]
Get:120 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libima-dbi-perl all 0.35-2.1 [23.1 kB]
Get:121 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libio-stringy-perl all 2.111-3 [56.5 kB]
Get:122 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-trigger-perl all 0.15-1 [12.3 kB]
Get:123 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libuniversal-moniker-perl all 0.08-8.1 [7056 B]
Get:124 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclone-perl amd64 0.45-1+b1 [15.4 kB]
Get:125 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-dbi-perl all 3.0.17-4.1 [105 kB]
Get:126 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdata-page-perl all 2.03-1 [11.6 kB]
Get:127 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libexporter-lite-perl all 0.08-1 [11.1 kB]
Get:128 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-dbi-pager-perl all 0.08-5 [7916 B]
Get:129 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsasl2-modules-db amd64 2.1.27+dfsg-2.1 [69.1 kB]
Get:130 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsasl2-2 amd64 2.1.27+dfsg-2.1 [106 kB]
Get:131 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libldap-2.4-2 amd64 2.4.57+dfsg-2 [232 kB]
Get:132 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpq5 amd64 13.2-1 [176 kB]
Get:133 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdbd-pg-perl amd64 3.14.2-1+b1 [215 kB]
Get:134 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-dbi-pg-perl all 0.09-5.1 [9484 B]
Get:135 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-inspector-perl all 1.36-1 [19.6 kB]
Get:136 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-makemethods-perl all 1.01-5 [294 kB]
Get:137 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libclass-method-modifiers-perl all 2.13-1 [19.2 kB]
Get:138 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfreezethaw-perl all 0.5001-2.1 [16.9 kB]
Get:139 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdbix-dbschema-perl all 0.45-1 [63.3 kB]
Get:140 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libparse-recdescent-perl all 1.967015+dfsg-2 [159 kB]
Get:141 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libencode-locale-perl all 1.05-1.1 [13.2 kB]
Get:142 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtimedate-perl all 2.3300-2 [39.3 kB]
Get:143 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhttp-date-perl all 6.05-1 [10.4 kB]
Get:144 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfile-listing-perl all 6.14-1 [12.4 kB]
Get:145 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhtml-tree-perl all 5.07-2 [213 kB]
Get:146 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libio-html-perl all 1.004-2 [16.1 kB]
Get:147 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 liblwp-mediatypes-perl all 6.04-1 [19.9 kB]
Get:148 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhttp-message-perl all 6.29-1 [79.7 kB]
Get:149 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhttp-cookies-perl all 6.10-1 [19.6 kB]
Get:150 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libhttp-negotiate-perl all 6.01-1 [12.8 kB]
Get:151 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 perl-openssl-defaults amd64 5 [7360 B]
Get:152 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libnet-ssleay-perl amd64 1.88-3+b1 [321 kB]
Get:153 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libio-socket-ssl-perl all 2.069-1 [215 kB]
Get:154 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libnet-http-perl all 6.20-1 [25.1 kB]
Get:155 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 liblwp-protocol-https-perl all 6.10-1 [12.2 kB]
Get:156 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtry-tiny-perl all 0.30-1 [23.3 kB]
Get:157 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libwww-robotrules-perl all 6.02-1 [12.9 kB]
Get:158 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libwww-perl all 6.53-1 [192 kB]
Get:159 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-parser-perl amd64 2.46-2 [206 kB]
Get:160 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-perl all 0.08-3.1 [93.9 kB]
Get:161 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdbix-dbstag-perl all 0.12-2 [102 kB]
Get:162 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdynaloader-functions-perl all 0.003-1.1 [12.7 kB]
Get:163 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdevel-callchecker-perl amd64 0.008-1+b2 [15.9 kB]
Get:164 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libdigest-md5-file-perl all 0.08-1.1 [9608 B]
Get:165 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libfile-sharedir-perl all 1.118-1 [17.3 kB]
Get:166 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgd-perl amd64 2.73-1+b1 [141 kB]
Get:167 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libio-pty-perl amd64 1:1.15-2 [37.0 kB]
Get:168 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libipc-run-perl all 20200505.0-1 [102 kB]
Get:169 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-twig-perl all 1:3.52-1 [181 kB]
Get:170 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-xpath-perl all 1.44-1 [69.5 kB]
Get:171 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgraphviz-perl all 2.24-1 [92.7 kB]
Get:172 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libyaml-perl all 1.30-1 [67.7 kB]
Get:173 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libgo-perl all 0.15-9 [268 kB]
Get:174 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libparams-classify-perl amd64 0.015-1+b3 [25.7 kB]
Get:175 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmodule-runtime-perl all 0.016-1 [19.4 kB]
Get:176 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libimport-into-perl all 1.002005-1 [11.6 kB]
Get:177 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 liblog-log4perl-perl all 1.54-1 [378 kB]
Get:178 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmodule-build-perl all 0.423100-1 [258 kB]
Get:179 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 librole-tiny-perl all 2.002004-1 [21.4 kB]
Get:180 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libstrictures-perl all 2.000006-1 [18.6 kB]
Get:181 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsub-quote-perl all 2.006006-1 [21.0 kB]
Get:182 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libmoo-perl all 2.004004-1 [59.9 kB]
Get:183 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libpackage-variant-perl all 1.003002-1.1 [21.2 kB]
Get:184 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libsql-translator-perl all 1.62-1 [394 kB]
Get:185 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libtemplate-perl amd64 2.27-1+b3 [565 kB]
Get:186 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-namespacesupport-perl all 1.12-1.1 [14.9 kB]
Get:187 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-sax-base-perl all 1.09-1.1 [20.7 kB]
Get:188 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-sax-perl all 1.02+dfsg-1 [59.0 kB]
Get:189 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-libxml-perl amd64 2.0134+dfsg-2+b1 [337 kB]
Get:190 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxslt1.1 amd64 1.1.34-4 [239 kB]
Get:191 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-libxslt-perl amd64 1.99-1+b1 [47.3 kB]
Get:192 http://[::1]:3142/ftp.u-picardie.fr/debian sid/main amd64 libxml-simple-perl all 2.25-1 [72.0 kB]
debconf: delaying package configuration, since apt-utils is not installed
[...]
+------------------------------------------------------------------------------+
| Build |
+------------------------------------------------------------------------------+
Unpack source
-------------
Format: 3.0 (quilt)
Source: libchado-perl
Binary: libchado-perl, chado-utils
Architecture: all
Version: 1.31-7
Maintainer: Debian Med Packaging Team <debian-med-packaging at lists.alioth.debian.org>
Uploaders: Scott Cain <scain at cpan.org>, Steffen Moeller <moeller at debian.org>, Olivier Sallou <osallou at debian.org>, Andreas Tille <tille at debian.org>
Homepage: http://gmod.org/wiki/Chado
Standards-Version: 4.2.1
Vcs-Browser: https://salsa.debian.org/med-team/libchado-perl
Vcs-Git: https://salsa.debian.org/med-team/libchado-perl.git
Build-Depends: debhelper (>= 11~)
Build-Depends-Indep: perl, libclass-dbi-pg-perl, libxml-libxslt-perl, liblog-log4perl-perl, bioperl, libgo-perl, libdbd-pg-perl, libdbi-perl, libgd-gd2-perl, libdigest-md5-file-perl, libdata-stag-perl, libxml-perl, libclass-dbi-perl, libclass-dbi-pager-perl, libxml-simple-perl, libwww-perl, libtemplate-perl, libcgi-session-perl, libsql-translator-perl, libdbix-dbstag-perl, libmodule-build-perl
Package-List:
chado-utils deb perl optional arch=all
libchado-perl deb perl optional arch=all
Checksums-Sha1:
47de881786d4f1a86264ca9ce9ad5d05650d7aa9 5051094 libchado-perl_1.31.orig.tar.gz
edbc9411194a3a26a098ad04a76dc769a3569b7b 14748 libchado-perl_1.31-7.debian.tar.xz
Checksums-Sha256:
75eb45e681f4cdb41884cccbf62828604e4e206b821f90c7ed155d809bb4ad7a 5051094 libchado-perl_1.31.orig.tar.gz
4150084f4b592fa4169e1e5eb38841443661a9b1d1ef786384432309f302f197 14748 libchado-perl_1.31-7.debian.tar.xz
Files:
a4748b03324185eea185b2391b94e36a 5051094 libchado-perl_1.31.orig.tar.gz
90605689ace4a274afd556a93cc81b16 14748 libchado-perl_1.31-7.debian.tar.xz
dpkg-source: warning: extracting unsigned source package (libchado-perl_1.31-7.dsc)
dpkg-source: info: extracting libchado-perl in /<<PKGBUILDDIR>>
dpkg-source: info: unpacking libchado-perl_1.31.orig.tar.gz
dpkg-source: info: unpacking libchado-perl_1.31-7.debian.tar.xz
dpkg-source: info: using patch list from debian/patches/series
dpkg-source: info: applying fix_perl_headers
dpkg-source: info: applying force_SIMPLE
dpkg-source: info: applying fix_spelling_manpage
dpkg-source: info: applying fix_manpages
dpkg-source: info: applying setBinPathForBuilder
dpkg-source: info: applying remove_pl_extension.patch
dpkg-source: info: applying 0001-Sort-generated-build.conf-for-reproducibility.patch
dpkg-source: info: applying 0001-Sort-installed-configuration-file-for-reproducibilit.patch
Check disk space
----------------
Sufficient free space for build
User Environment
----------------
APT_CONFIG=/var/lib/sbuild/apt.conf
HOME=/sbuild-nonexistent
LANG=C.UTF-8
LC_ALL=C.UTF-8
LOGNAME=emollier
PATH=/usr/local/sbin:/usr/local/bin:/usr/sbin:/usr/bin:/sbin:/bin:/usr/games
SCHROOT_ALIAS_NAME=unstable-amd64-sbuild
SCHROOT_CHROOT_NAME=sid-amd64-sbuild
SCHROOT_COMMAND=env
SCHROOT_GID=1000
SCHROOT_GROUP=emollier
SCHROOT_SESSION_ID=sid-amd64-sbuild-d705e414-de0c-4f8c-acd0-db77709f5fb6
SCHROOT_UID=1000
SCHROOT_USER=emollier
SHELL=/bin/sh
USER=emollier
dpkg-buildpackage
-----------------
Command: dpkg-buildpackage --sanitize-env -us -uc -b -rfakeroot -i\.git -I.git
dpkg-buildpackage: info: source package libchado-perl
dpkg-buildpackage: info: source version 1.31-7
dpkg-buildpackage: info: source distribution UNRELEASED
dpkg-buildpackage: info: source changed by Étienne Mollier <etienne.mollier at mailoo.org>
dpkg-source -i\.git -I.git --before-build .
dpkg-buildpackage: info: host architecture amd64
fakeroot debian/rules clean
dh clean --buildsystem=perl_makemaker
dh_auto_clean -O--buildsystem=perl_makemaker
dh_autoreconf_clean -O--buildsystem=perl_makemaker
dh_clean -O--buildsystem=perl_makemaker
debian/rules build
dh build --buildsystem=perl_makemaker
dh_update_autotools_config -O--buildsystem=perl_makemaker
dh_autoreconf -O--buildsystem=perl_makemaker
debian/rules override_dh_auto_configure
make[1]: Entering directory '/<<PKGBUILDDIR>>'
perl Makefile.PL INSTALL_BASE=/usr DBNAME=gmod-chado DBUSER=chado DBPASS=chado DBHOST=localhost DBPORT=5432 GMOD_ROOT=/<<PKGBUILDDIR>>/debian/libchado-perl/usr/share/gmod/chado DBDRIVER=PostgreSQL RECONFIGURE=1 SIMPLE=Y LOCAL_TMP=/<<PKGBUILDDIR>>/debian/libchado-perl/tmp
Building with the following database options:
GMOD_ROOT=/<<PKGBUILDDIR>>/debian/libchado-perl/usr/share/gmod/chado
DBDRIVER=PostgreSQL
DBNAME=gmod-chado
DBUSER=chado
DBPASS=chado
DBHOST=localhost
DBPORT=5432
SCHEMA=
LOCAL_TMP=/<<PKGBUILDDIR>>/debian/libchado-perl/tmp
DBORGANISM=
DEFAULT=
VERSION=1.31
Extracting /<<PKGBUILDDIR>>/bin/../lib/Bio/Chado/AutoDBI.pm (with variable substitutions)
initializing load scripts...
Created MYMETA.yml and MYMETA.json
Creating new 'Build' script for 'Chado' version '1.31'
Building Chado
Checking if your kit is complete...
Looks good
Warning: prerequisite Bio::Chado::Schema 0 not found.
Generating a Unix-style Makefile
Writing Makefile for chado
Writing MYMETA.yml and MYMETA.json
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
Makefile written. Now you should do the following, in order:
1. make (creates necessary build files)
2. sudo make install (creates $GMOD_ROOT and subdirectories)
-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*WARNING-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
STEP 3 WILL DELETE ANY DATA IN A DATABASE WITH THE
DATABASE NAME YOU PROVIDED!
-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*WARNING-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*-*
3a. make load_schema (loads SQL schema into database)
or
3b. make update (update an old Chado schema and stop here)
4. make prepdb (loads basic data)
5. make ontologies (loads data for various ontologies)
Optional Targets:
make rm_locks (removes ontology lock files, allowing installation
of ontologies on successive builds of the database
without removing the ontology files altogether)
make clean (remove build related files and ontology tmp dir)
make instructions (at any moment display these instructions)
-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-=-
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_auto_build -O--buildsystem=perl_makemaker
make -j6
make[1]: Entering directory '/<<PKGBUILDDIR>>'
Skip blib/lib/Bio/FeatureIO/chado.pm (unchanged)
Skip blib/lib/Bio/GMOD/DB/Config.pm (unchanged)
Skip blib/lib/Bio/GMOD/Load/GFF.pm (unchanged)
Skip blib/lib/Bio/GMOD/DB/Tools/ETA.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/AcodeWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/FeatureWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/Load.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/SWISS_CRC64.pm (unchanged)
Skip blib/lib/Bio/GMOD/Config.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/TableWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/MyLargePrimarySeq.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/GenbankSubmitWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/BulkWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/SeqUtils.pm (unchanged)
Skip blib/lib/Bio/GMOD/DB/Adapter/Wormbase.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/FastaWriter.pm (unchanged)
Skip blib/lib/Bio/FeatureIO/chadobulk.pm (unchanged)
Skip blib/lib/Bio/GMOD/DB/Adapter.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles.pm (unchanged)
Skip blib/lib/Bio/GMOD/Config2.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/GnomapWriter.pm (unchanged)
Skip blib/lib/Bio/Chado/AutoDBI.pm (unchanged)
Skip blib/lib/Bio/Chado/Builder.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/MySplitLocation.pm (unchanged)
Skip blib/lib/Bio/Chado/Config.pm (unchanged)
Skip blib/lib/Bio/GMOD/Bulkfiles/BlastWriter.pm (unchanged)
Skip blib/lib/Bio/GMOD/DB/Adapter/FeatureIterator.pm (unchanged)
"/usr/bin/perl" "-Iblib/arch" "-Iblib/lib" load/bin/bulk_load_gff3.PLS load/bin/gmod_bulk_load_gff3.pl
"/usr/bin/perl" "-Iblib/arch" "-Iblib/lib" install_util/conf_install.PLS install_util/conf_install.pl
Extracting conf_install.pl (with variable substitutions)
"/usr/bin/perl" "-Iblib/arch" "-Iblib/lib" install_util/src_install.PLS install_util/src_install.pl
Extracting src_install.pl (with variable substitutions)
cp bin/gmod_add_organism.pl blib/script/gmod_add_organism.pl
cp bin/gmod_apollo_triggers.pl blib/script/gmod_apollo_triggers.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_add_organism.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_apollo_triggers.pl
cp load/bin/gmod_bulk_load_gff3.pl blib/script/gmod_bulk_load_gff3.pl
cp bin/gmod_bulk_load_pubmed.pl blib/script/gmod_bulk_load_pubmed.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_bulk_load_gff3.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_bulk_load_pubmed.pl
cp bin/gmod_chado_properties.pl blib/script/gmod_chado_properties.pl
cp bin/gmod_extract_dbxref_from_gff.pl blib/script/gmod_extract_dbxref_from_gff.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_chado_properties.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_extract_dbxref_from_gff.pl
cp bin/gmod_fasta2gff3.pl blib/script/gmod_fasta2gff3.pl
cp bin/gmod_gff3_preprocessor.pl blib/script/gmod_gff3_preprocessor.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_fasta2gff3.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_gff3_preprocessor.pl
cp bin/gmod_load_cvterms.pl blib/script/gmod_load_cvterms.pl
cp bin/gmod_make_cvtermpath.pl blib/script/gmod_make_cvtermpath.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_load_cvterms.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_make_cvtermpath.pl
cp bin/gmod_make_gff_from_dbxref.pl blib/script/gmod_make_gff_from_dbxref.pl
cp bin/gmod_materialized_view_tool.pl blib/script/gmod_materialized_view_tool.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_make_gff_from_dbxref.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_materialized_view_tool.pl
cp bin/gmod_sort_gff3.pl blib/script/gmod_sort_gff3.pl
"/usr/bin/perl" -MExtUtils::MY -e 'MY->fixin(shift)' -- blib/script/gmod_sort_gff3.pl
Manifying 12 pod documents
Manifying 26 pod documents
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_auto_test
make[1]: Entering directory '/<<PKGBUILDDIR>>'
echo "Skipping tests to avoid db access"
Skipping tests to avoid db access
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
create-stamp debian/debhelper-build-stamp
fakeroot debian/rules binary
dh binary --buildsystem=perl_makemaker
dh_testroot -O--buildsystem=perl_makemaker
dh_prep -O--buildsystem=perl_makemaker
dh_installdirs -O--buildsystem=perl_makemaker
dh_auto_install -O--buildsystem=perl_makemaker
make -j6 install DESTDIR=/<<PKGBUILDDIR>>/debian/tmp AM_UPDATE_INFO_DIR=no PREFIX=/usr
make[1]: Entering directory '/<<PKGBUILDDIR>>'
"/usr/bin/perl" "/<<PKGBUILDDIR>>/install_util/conf_install.pl" 'GMOD_ROOT=/<<PKGBUILDDIR>>/debian/libchado-perl/usr/share/gmod/chado' 'VERSION=1.31'
"/usr/bin/perl" "/<<PKGBUILDDIR>>/install_util/src_install.pl" 'GMOD_ROOT=/<<PKGBUILDDIR>>/debian/libchado-perl/usr/share/gmod/chado'
Manifying 12 pod documents
Manifying 26 pod documents
Appending installation info to /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/x86_64-linux-gnu-thread-multi/perllocal.pod
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/SeqUtils.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Load.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Config2.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Config.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Load/GFF.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/DB/Config.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/DB/Adapter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/DB/Tools/ETA.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/DB/Adapter/Wormbase.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/DB/Adapter/FeatureIterator.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/TableWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/SWISS_CRC64.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/MySplitLocation.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/MyLargePrimarySeq.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/GnomapWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/GenbankSubmitWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/FeatureWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/FastaWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/BulkWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/BlastWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/GMOD/Bulkfiles/AcodeWriter.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/FeatureIO/chadobulk.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/FeatureIO/chado.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/Chado/Config.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/Chado/Builder.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/lib/perl5/Bio/Chado/AutoDBI.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_bulk_load_gff3.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_sort_gff3.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_materialized_view_tool.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_make_gff_from_dbxref.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_make_cvtermpath.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_load_cvterms.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_gff3_preprocessor.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_fasta2gff3.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_extract_dbxref_from_gff.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_chado_properties.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_bulk_load_pubmed.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man1/gmod_add_organism.pl.1p
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::SeqUtils.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Load::GFF.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Load.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::DB::Tools::ETA.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::DB::Config.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::DB::Adapter::Wormbase.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::DB::Adapter::FeatureIterator.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::DB::Adapter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Config2.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Config.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::TableWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::SWISS_CRC64.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::MySplitLocation.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::MyLargePrimarySeq.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::GnomapWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::GenbankSubmitWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::FeatureWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::FastaWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::BulkWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::BlastWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles::AcodeWriter.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::GMOD::Bulkfiles.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::FeatureIO::chadobulk.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::FeatureIO::chado.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::Chado::Config.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/man/man3/Bio::Chado::Builder.3pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_sort_gff3.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_materialized_view_tool.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_make_gff_from_dbxref.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_make_cvtermpath.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_load_cvterms.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_gff3_preprocessor.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_fasta2gff3.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_extract_dbxref_from_gff.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_chado_properties.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_bulk_load_pubmed.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_add_organism.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_apollo_triggers.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_bulk_load_gff3.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/ucsc_snp2gff.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/ucsc_genes2gff.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/test_load.sh
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/test_load.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/privileges.tmpl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2html.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2graphviz_svg.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2graphviz.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2diagram.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2cdbi_viaTT.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/pg2cdbi.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/make_partial_indexes.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/make_cvtermpath.sh
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/make_cvtermpath.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/load_taxonomy_cvterms.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/load_ncbi_taxonomy.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/interactions2SIF.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_update_chado.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_gff2biomart5.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_dump_gff3.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gmod_bulkfiles.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/gencode2sql.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/ddltrans
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/dbi.tt2
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/create_so_bridge_command
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/create-so-bridge.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/create-bridge-sql.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/config.PLS
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/chado-fix-flybase-instance.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/chado-build-schema.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/addcascades
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/Skip_tables.pm
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/GMODCallHome.pl
Installing /<<PKGBUILDDIR>>/debian/tmp/usr/bin/AutoDBI.PL
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_install
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_install -O--buildsystem=perl_makemaker
rm -f debian/libchado-perl/usr/share/gmod/chado/load/etc/load.conf
sed -i 's/SQLFILE=\/.*\/libchado-perl/SQLFILE=/' debian/libchado-perl/usr/share/gmod/chado/conf/gmod-chado.conf
sed -i 's/TMP=\/.*\/tmp/CONF=\/tmp/' debian/libchado-perl/usr/share/gmod/chado/conf/gmod.conf
sed -i 's/CONF=.*\/conf/CONF=\/etc\/gmod/' debian/libchado-perl/usr/share/gmod/chado/conf/gmod.conf
mv /<<PKGBUILDDIR>>/debian/libchado-perl/usr/share/gmod/chado/conf/* debian/libchado-perl/etc/gmod/
# Give exexution rights to perl scripts
find debian/libchado-perl/ -name *.pl | xargs chmod 755
find debian/libchado-perl/ -name *.tmpl | xargs chmod 644
find debian/libchado-perl/ -name *.pm | xargs chmod 644
find debian/libchado-perl/ -name *.pod | xargs rm -f
find debian/libchado-perl/ -name .packlist | xargs rm -f
find debian/libchado-perl/ -name "*.sql" | xargs chmod a-x
chmod 755 debian/libchado-perl/usr/share/gmod/chado/soi/t/t_soi_parse_intersect
chmod 755 debian/libchado-perl/usr/share/gmod/chado/src/chado/modules/audit/make_audit_ddl
mv debian/tmp/usr/bin/test* debian/libchado-perl/usr/share/gmod/chado/bin/
mv debian/tmp/usr/bin/gmod_chado* debian/libchado-perl/usr/share/gmod/chado/bin/
mv debian/tmp/usr/bin/config* debian/libchado-perl/usr/share/gmod/chado/bin/
mv debian/tmp/usr/bin/Auto* debian/libchado-perl/usr/share/gmod/chado/bin/
mv debian/tmp/usr/bin/* debian/chado-utils/usr/share/gmod/chado/bin/
mv debian/tmp/usr/lib/perl5/* debian/libchado-perl/usr/share/perl5/
rm -rf debian/libchado-perl/usr/lib/perl5
mv debian/tmp/usr/man/man3 debian/libchado-perl/usr/share/man
mv debian/tmp/usr/man/man1 debian/chado-utils/usr/share/man
cp debian/testdb.pl debian/libchado-perl/usr/share/gmod/chado/bin/
rm -rf debian/libchado-perl/usr/share/perl5/x86_64-linux-gnu-thread-multi
# Needed for runtime configure
rm -rf debian/libchado-perl/usr/share/gmod/chado/lib
rm -rf debian/libchado-perl/usr/bin
rm -rf debian/libchado-perl/usr/lib
rm -rf debian/libchado-perl/usr/share/gmod/chado/load/logs
rm -rf debian/libchado-perl/usr/share/gmod/chado/tmp
# Remove not required man pages for user (also contains pod2man errors and missing what-is)
rm -rf debian/libchado-perl/usr/share/man
# Fix perl interpreter path
for pl in `grep -Rl '#!/usr/bin/env[[:space:]]\+perl' debian/*/usr/*` ; do \
sed -i '1s?^#!/usr/bin/env[[:space:]]\+perl?#!/usr/bin/perl?' ${pl} ; \
done
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
debian/rules override_dh_installdocs
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_installdocs
# remove installation doc
find debian -name "INSTALL.Chado*" -delete
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_installchangelogs -O--buildsystem=perl_makemaker
dh_installexamples -O--buildsystem=perl_makemaker
dh_installman -O--buildsystem=perl_makemaker
dh_installinit -O--buildsystem=perl_makemaker
dh_lintian -O--buildsystem=perl_makemaker
dh_perl -O--buildsystem=perl_makemaker
dh_link -O--buildsystem=perl_makemaker
dh_strip_nondeterminism -O--buildsystem=perl_makemaker
dh_compress -O--buildsystem=perl_makemaker
debian/rules override_dh_fixperms
make[1]: Entering directory '/<<PKGBUILDDIR>>'
dh_fixperms
chmod 644 debian/libchado-perl/etc/gmod/gmod-chado.conf
find debian -name create_so_bridge_command -exec chmod 644 \{\} \;
find debian -name Skip_tables.pm -exec chmod 644 \{\} \;
find debian -name "*.tt2" -exec chmod 644 \{\} \;
find debian -name "*.tmpl" -exec chmod 644 \{\} \;
make[1]: Leaving directory '/<<PKGBUILDDIR>>'
dh_missing -O--buildsystem=perl_makemaker
dh_installdeb -O--buildsystem=perl_makemaker
dh_gencontrol -O--buildsystem=perl_makemaker
dh_md5sums -O--buildsystem=perl_makemaker
dh_builddeb -O--buildsystem=perl_makemaker
dpkg-deb: building package 'chado-utils' in '../chado-utils_1.31-7_all.deb'.
dpkg-deb: building package 'libchado-perl' in '../libchado-perl_1.31-7_all.deb'.
dpkg-genbuildinfo --build=binary
dpkg-genchanges --build=binary >../libchado-perl_1.31-7_amd64.changes
dpkg-genchanges: info: binary-only upload (no source code included)
dpkg-source -i\.git -I.git --after-build .
dpkg-buildpackage: info: binary-only upload (no source included)
--------------------------------------------------------------------------------
Build finished at 2021-04-22T18:32:57Z
Finished
--------
I: Built successfully
[...]
+------------------------------------------------------------------------------+
| Post Build |
+------------------------------------------------------------------------------+
autopkgtest
-----------
[...]
autopkgtest [20:33:37]: test autodep8-perl-build-deps: /usr/share/pkg-perl-autopkgtest/runner build-deps
autopkgtest [20:33:37]: test autodep8-perl-build-deps: [-----------------------
t/01_okay.t ..
1..1
not ok 1 - use Bio::Chado::LoadDBI;
# Failed test 'use Bio::Chado::LoadDBI;'
# at t/01_okay.t line 7.
# Tried to use 'Bio::Chado::LoadDBI'.
# Error: Can't locate Bio/Chado/LoadDBI.pm in @INC (you may need to install the Bio::Chado::LoadDBI module) (@INC contains: lib /tmp/autopkgtest.jnkfOi/autopkgtest_tmp/smokeXQamzC/blib/lib /tmp/autopkgtest.jnkfOi/autopkgtest_tmp/smokeXQamzC/blib/arch /tmp/autopkgtest.jnkfOi/autopkgtest_tmp/smokeXQamzC /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.1 /usr/local/share/perl/5.32.1 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at t/01_okay.t line 7.
# BEGIN failed--compilation aborted at t/01_okay.t line 7.
# Looks like you failed 1 test of 1.
Dubious, test returned 1 (wstat 256, 0x100)
Failed 1/1 subtests
Test Summary Report
-------------------
t/01_okay.t (Wstat: 256 Tests: 1 Failed: 1)
Failed test: 1
Non-zero exit status: 1
Files=1, Tests=1, 0 wallclock secs ( 0.01 usr 0.00 sys + 0.02 cusr 0.00 csys = 0.03 CPU)
Result: FAIL
autopkgtest [20:33:38]: test autodep8-perl-build-deps: -----------------------]
autopkgtest [20:33:38]: test autodep8-perl-build-deps: - - - - - - - - - - results - - - - - - - - - -
autodep8-perl-build-deps FAIL non-zero exit status 1
[...]
autopkgtest [20:34:04]: test autodep8-perl: /usr/share/pkg-perl-autopkgtest/runner runtime-deps
autopkgtest [20:34:04]: test autodep8-perl: [-----------------------
/usr/share/pkg-perl-autopkgtest/runtime-deps.d/use.t .. skipped: chado.pm or lib/chado.pm not found
Files=1, Tests=0, 1 wallclock secs ( 0.01 usr 0.00 sys + 0.05 cusr 0.01 csys = 0.07 CPU)
Result: NOTESTS
autopkgtest [20:34:05]: test autodep8-perl: -----------------------]
autopkgtest [20:34:05]: test autodep8-perl: - - - - - - - - - - results - - - - - - - - - -
autodep8-perl PASS (superficial)
[...]
autopkgtest [20:35:11]: test autodep8-perl-recommends: /usr/share/pkg-perl-autopkgtest/runner runtime-deps-and-recommends
autopkgtest [20:35:11]: test autodep8-perl-recommends: [-----------------------
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/FeatureIO/chado.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter/Wormbase.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load/GFF.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/SeqUtils.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Looks like you failed 6 tests of 27.
# Failed test 'all modules in libchado-perl pass the syntax check'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 127.
# Looks like you failed 1 test of 8.
/usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t ..
1..8
ok 1 - Package libchado-perl is known to dpkg
ok 2 - Got status information for package libchado-perl
ok 3 - Got file list for package libchado-perl
# Subtest: all modules in libchado-perl pass the syntax check
1..27
ok 1 - /usr/bin/perl -wc /usr/share/perl5/Bio/Chado/AutoDBI.pm exited successfully
ok 2 - /usr/bin/perl -wc /usr/share/perl5/Bio/Chado/Builder.pm exited successfully
ok 3 - /usr/bin/perl -wc /usr/share/perl5/Bio/Chado/Config.pm exited successfully
# Can't locate Bio/Chado/LoadDBI.pm in @INC (you may need to install the Bio::Chado::LoadDBI module) (@INC contains: /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.1 /usr/local/share/perl/5.32.1 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at /usr/share/perl5/Bio/FeatureIO/chado.pm line 7.
# BEGIN failed--compilation aborted at /usr/share/perl5/Bio/FeatureIO/chado.pm line 7.
not ok 4 - /usr/bin/perl -wc /usr/share/perl5/Bio/FeatureIO/chado.pm exited successfully
ok 5 - /usr/bin/perl -wc /usr/share/perl5/Bio/FeatureIO/chadobulk.pm exited successfully
ok 6 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/AcodeWriter.pm exited successfully
ok 7 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/BlastWriter.pm exited successfully
ok 8 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/BulkWriter.pm exited successfully
ok 9 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/FastaWriter.pm exited successfully
ok 10 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/FeatureWriter.pm exited successfully
# Useless use of string eq in void context at /usr/share/perl5/Bio/GMOD/Bulkfiles/GenbankSubmitWriter.pm line 1214.
ok 11 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/GenbankSubmitWriter.pm exited successfully
# Name "Bio::GMOD::Bulkfiles::GnomapWriter::O" used only once: possible typo at /usr/share/perl5/Bio/GMOD/Bulkfiles/GnomapWriter.pm line 615.
ok 12 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/GnomapWriter.pm exited successfully
ok 13 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/MyLargePrimarySeq.pm exited successfully
ok 14 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/MySplitLocation.pm exited successfully
ok 15 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/SWISS_CRC64.pm exited successfully
ok 16 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles/TableWriter.pm exited successfully
# "my" variable $featfiles masks earlier declaration in same scope at /usr/share/perl5/Bio/GMOD/Bulkfiles.pm line 1521.
# Unescaped left brace in regex is passed through in regex; marked by <-- HERE in m/\${ <-- HERE datadir}/ at /usr/share/perl5/Bio/GMOD/Bulkfiles.pm line 1653.
# Unescaped left brace in regex is passed through in regex; marked by <-- HERE in m/\${ <-- HERE species}/ at /usr/share/perl5/Bio/GMOD/Bulkfiles.pm line 1654.
ok 17 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Bulkfiles.pm exited successfully
ok 18 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Config.pm exited successfully
# no (gmod|[\w_\-]+db)\.conf$ file at /usr/share/perl5/Bio/GMOD/conf; setenv GMOD_ROOT to locate. at /usr/share/perl5/Bio/GMOD/Config2.pm line 618.
ok 19 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Config2.pm exited successfully
ok 20 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter/FeatureIterator.pm exited successfully
# Can't use 'defined(@array)' (Maybe you should just omit the defined()?) at /usr/share/perl5/Bio/GMOD/DB/Adapter.pm line 498.
# Compilation failed in require at /usr/lib/x86_64-linux-gnu/perl-base/base.pm line 135.
# ...propagated at /usr/lib/x86_64-linux-gnu/perl-base/base.pm line 157.
# BEGIN failed--compilation aborted at /usr/share/perl5/Bio/GMOD/DB/Adapter/Wormbase.pm line 3.
not ok 21 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter/Wormbase.pm exited successfully
# Can't use 'defined(@array)' (Maybe you should just omit the defined()?) at /usr/share/perl5/Bio/GMOD/DB/Adapter.pm line 498.
not ok 22 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter.pm exited successfully
ok 23 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Config.pm exited successfully
ok 24 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Tools/ETA.pm exited successfully
# Can't locate Chado/AutoDBI.pm in @INC (you may need to install the Chado::AutoDBI module) (@INC contains: ../../../lib /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.1 /usr/local/share/perl/5.32.1 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at /usr/share/perl5/Bio/GMOD/Load/GFF.pm line 5.
# BEGIN failed--compilation aborted at /usr/share/perl5/Bio/GMOD/Load/GFF.pm line 5.
not ok 25 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load/GFF.pm exited successfully
# Can't locate Chado/AutoDBI.pm in @INC (you may need to install the Chado::AutoDBI module) (@INC contains: /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.1 /usr/local/share/perl/5.32.1 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at /usr/share/perl5/Bio/GMOD/Load.pm line 3.
# BEGIN failed--compilation aborted at /usr/share/perl5/Bio/GMOD/Load.pm line 3.
not ok 26 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load.pm exited successfully
# Can't locate GMOD/Chado/LoadDBI.pm in @INC (you may need to install the GMOD::Chado::LoadDBI module) (@INC contains: /etc/perl /usr/local/lib/x86_64-linux-gnu/perl/5.32.1 /usr/local/share/perl/5.32.1 /usr/lib/x86_64-linux-gnu/perl5/5.32 /usr/share/perl5 /usr/lib/x86_64-linux-gnu/perl-base /usr/lib/x86_64-linux-gnu/perl/5.32 /usr/share/perl/5.32 /usr/local/lib/site_perl) at /usr/share/perl5/Bio/GMOD/SeqUtils.pm line 41.
# BEGIN failed--compilation aborted at /usr/share/perl5/Bio/GMOD/SeqUtils.pm line 41.
not ok 27 - /usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/SeqUtils.pm exited successfully
not ok 4 - all modules in libchado-perl pass the syntax check
ok 5 - Package chado-utils is known to dpkg
ok 6 - Got status information for package chado-utils
ok 7 - Got file list for package chado-utils
ok 8 # skip no perl modules to test in chado-utils
Dubious, test returned 1 (wstat 256, 0x100)
Failed 1/8 subtests
(less 1 skipped subtest: 6 okay)
Test Summary Report
-------------------
/usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t (Wstat: 256 Tests: 8 Failed: 1)
Failed test: 4
Non-zero exit status: 1
Files=1, Tests=8, 0 wallclock secs ( 0.01 usr 0.00 sys + 0.73 cusr 0.08 csys = 0.82 CPU)
Result: FAIL
autopkgtest [20:35:13]: test autodep8-perl-recommends: -----------------------]
autopkgtest [20:35:13]: test autodep8-perl-recommends: - - - - - - - - - - results - - - - - - - - - -
autodep8-perl-recommends FAIL non-zero exit status 1
autopkgtest [20:35:13]: test autodep8-perl-recommends: - - - - - - - - - - stderr - - - - - - - - - -
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/FeatureIO/chado.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter/Wormbase.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/DB/Adapter.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load/GFF.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/Load.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Failed test '/usr/bin/perl -wc /usr/share/perl5/Bio/GMOD/SeqUtils.pm exited successfully'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 124.
# Looks like you failed 6 tests of 27.
# Failed test 'all modules in libchado-perl pass the syntax check'
# at /usr/share/pkg-perl-autopkgtest/runtime-deps-and-recommends.d/syntax.t line 127.
# Looks like you failed 1 test of 8.
autopkgtest [20:35:13]: @@@@@@@@@@@@@@@@@@@@ summary
autodep8-perl-build-deps FAIL non-zero exit status 1
autodep8-perl PASS (superficial)
autodep8-perl-recommends FAIL non-zero exit status 1
E: Autopkgtest run failed.
[...]
-------------- next part --------------
A non-text attachment was scrubbed...
Name: signature.asc
Type: application/pgp-signature
Size: 833 bytes
Desc: not available
URL: <http://alioth-lists.debian.net/pipermail/pkg-perl-maintainers/attachments/20210422/7d8512d0/attachment-0001.sig>
More information about the pkg-perl-maintainers
mailing list