Oops, I managed to forget to attach the output, adding it to the report. -- Étienne Mollier <[email protected]> Fingerprint: 8f91 b227 c7d6 f2b1 948c 8236 793c f67e 8f0d 11da Sent from /dev/pts/1, please excuse my verbosity.
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 <[email protected]> Uploaders: Scott Cain <[email protected]>, Steffen Moeller <[email protected]>, Olivier Sallou <[email protected]>, Andreas Tille <[email protected]> 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 <[email protected]> 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. [...]
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