Your message dated Sun, 16 Feb 2025 10:04:46 +0000 with message-id <e1tjbw2-00bmw9...@fasolo.debian.org> and subject line Bug#1078626: fixed in libbio-procedural-perl 1.7.4-3 has caused the Debian Bug report #1078626, regarding libbio-procedural-perl: will FTBFS during trixie support period to be marked as done.
This means that you claim that the problem has been dealt with. If this is not the case it is now your responsibility to reopen the Bug report if necessary, and/or fix the problem forthwith. (NB: If you are a system administrator and have no idea what this message is talking about, this may indicate a serious mail system misconfiguration somewhere. Please contact ow...@bugs.debian.org immediately.) -- 1078626: https://bugs.debian.org/cgi-bin/bugreport.cgi?bug=1078626 Debian Bug Tracking System Contact ow...@bugs.debian.org with problems
--- Begin Message ---Package: src:libbio-procedural-perl Version: 1.7.4-2 User: debian...@lists.debian.org Usertags: ftbfs-during-trixie-support-period Tags: ftbfs Dear maintainer: During a rebuild of all packages in unstable in the year 2028, your package failed to build: -------------------------------------------------------------------------------- [...] debian/rules build dh build dh_update_autotools_config dh_autoreconf dh_auto_configure /usr/bin/perl Makefile.PL INSTALLDIRS=vendor "OPTIMIZE=-g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wdate-time -D_FORTIFY_SOURCE=2" "LD=x86_64-linux-gnu-gcc -g -O2 -Werror=implicit-function-declaration -ffile-prefix-map=/<<PKGBUILDDIR>>=. -fstack-protector-strong -fstack-clash-protection -Wformat -Werror=format-security -fcf-protection -Wl,-z,relro" Checking if your kit is complete... Looks good Generating a Unix-style Makefile Writing Makefile for Bio::Procedural Writing MYMETA.yml and MYMETA.json dh_auto_build make -j2 make[1]: Entering directory '/<<PKGBUILDDIR>>' cp lib/Bio/Perl.pm blib/lib/Bio/Perl.pm cp lib/Bio/Procedural.pm blib/lib/Bio/Procedural.pm Manifying 2 pod documents make[1]: Leaving directory '/<<PKGBUILDDIR>>' dh_auto_test make -j2 test TEST_VERBOSE=1 make[1]: Entering directory '/<<PKGBUILDDIR>>' PERL_DL_NONLAZY=1 "/usr/bin/perl" "-MExtUtils::Command::MM" "-MTest::Harness" "-e" "undef *Test::Harness::Switches; test_harness(1, 'blib/lib', 'blib/arch')" t/*.t t/00-compile.t ........... 1..2 ok 1 - Bio/Perl.pm loaded ok ok 2 - Bio/Procedural.pm loaded ok ok t/author-eol.t ........... skipped: these tests are for testing by the author t/author-mojibake.t ...... skipped: these tests are for testing by the author t/author-no-tabs.t ....... skipped: these tests are for testing by the author t/author-pod-coverage.t .. skipped: these tests are for testing by the author t/author-pod-syntax.t .... skipped: these tests are for testing by the author --------------------- WARNING --------------------- MSG: req was POST https://blast.ncbi.nlm.nih.gov/Blast.cgi User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.7.8 Content-Length: 4109 Content-Type: application/x-www-form-urlencoded COMPOSITION_BASED_STATISTICS=off&EXPECT=1e-10&DESCRIPTIONS=100&ALIGNMENT_VIEW=Pairwise&FORMAT_TYPE=Text&SERVICE=plain&PROGRAM=blastn&ALIGNMENTS=50&FILTER=L&CMD=Put&DATABASE=nr&QUERY=%3ENM_006732+Homo+sapiens+FosB+proto-oncogene%2C+AP-1+transcription+factor+subunit+(FOSB)%2C+transcript+variant+1%2C+mRNA.%0D%0AATTCATAAGACTCAGAGCTACGGCCACGGCAGGGACACGCGGAACCAAGACTTGGAAACTTGATTGTTGTGGTTCTTCTTGGGGGTTATGAAATTTCATTAATCTTTTTTTTTCCGGGGAGAAAGTTTTTGGAAAGATTCTTCCAGATATTTCTTCATTTTCTTTTGGAGGACCGACTTACTTTTTTTGGTCTTCTTTATTACTCCCCTCCCCCCGTGGGACCCGCCGGACGCGTGGAGGAGACCGTAGCTGAAGCTGATTCTGTACAGCGGGACAGCGCTTTCTGCCCCTGGGGGAGCAACCCCTCCCTCGCCCCTGGGTCCTACGGAGCCTGCACTTTCAAGAGGTACAGCGGCATCCTGTGGGGGCCTGGGCACCGCAGGAAGACTGCACAGAAACTTTGCCATTGTTGGAACGGGACGTTGCTCCTTCCCCGAGCTTCCCCGGACAGCGTACTTTGAGGACTCGCTCAGCTCACCGGGGACTCCCACGGCTCACCCCGGACTTGCACCTTACTTCCCCAACCCGGCCATAGCCTTGGCTTCCCGGCGACCTCAGCGTGGTCACAGGGGCCCCCCTGTGCCCAGGGAAATGTTTCAGGCTTTCCCCGGAGACTACGACTCCGGCTCCCGGTGCAGCTCCTCACCCTCTGCCGAGTCTCAATATCTGTCTTCGGTGGACTCCTTCGGCAGTCCACCCACCGCCGCCGCCTCCCAGGAGTGCGCCGGTCTCGGGGAAATGCCCGGTTCCTTCGTGCCCACGGTCACCGCGATCACAACCAGCCAGGACCTCCAGTGGCTTGTGCAACCCACCCTCATCTCTTCCATGGCCCAGTCCCAGGGGCAGCCACTGGCCTCCCAGCCCCCGGTCGTCGACCCCTACGACATGCCGGGAACCAGCTACTCCACACCAGGCATGAGTGGCTACAGCAGTGGCGGAGCGAGTGGCAGTGGTGGGCCTTCCACCAGCGGAACTACCAGTGGGCCTGGGCCTGCCCGCCCAGCCCGAGCCCGGCCTAGGAGACCCCGAGAGGAGACGCTCACCCCAGAGGAAGAGGAGAAGCGAAGGGTGCGCCGGGAACGAAATAAACTAGCAGCAGCTAAATGCAGGAACCGGCGGAGGGAGCTGACCGACCGACTCCAGGCGGAGACAGATCAGTTGGAGGAAGAAAAAGCAGAGCTGGAGTCGGAGATCGCCGAGCTCCAAAAGGAGAAGGAACGTCTGGAGTTTGTGCTGGTGGCCCACAAACCGGGCTGCAAGATCCCCTACGAAGAGGGGCCCGGGCCGGGCCCGCTGGCGGAGGTGAGAGATTTGCCGGGCTCAGCACCGGCTAAGGAAGATGGCTTCAGCTGGCTGCTGCCGCCCCCGCCACCACCGCCCCTGCCCTTCCAGACCAGCCAAGACGCACCCCCCAACCTGACGGCTTCTCTCTTTACACACAGTGAAGTTCAAGTCCTCGGCGACCCCTTCCCCGTTGTTAACCCTTCGTACACTTCTTCGTTTGTCCTCACCTGCCCGGAGGTCTCCGCGTTCGCCGGCGCCCAACGCACCAGCGGCAGTGACCAGCCTTCCGATCCCCTGAACTCGCCCTCCCTCCTCGCTCTGTGAACTCTTTAGACACACAAAACAAACAAACACATGGGGGAGAGAGACTTGGAAGAGGAGGAGGAGGAGGAGAAGGAGGAGAGAGAGGGGAAGAGACAAAGTGGGTGTGTGGCCTCCCTGGCTCCTCCGTCTGACCCTCTGCGGCCACTGCGCCACTGCCATCGGACAGGAGGATTCCTTGTGTTTTGTCCTGCCTCTTGTTTCTGTGCCCCGGCGAGGCCGGAGAGCTGGTGACTTTGGGGACAGGGGGTGGGAAGGGGATGGACACCCCCAGCTGACTGTTGGCTCTCTGACGTCAACCCAAGCTCTGGGGATGGGTGGGGAGGGGGGCGGGTGACGCCCACCTTCGGGCAGTCCTGTGTGAGGATTAAGGGACGGGGGTGGGAGGTAGGCTGTGGGGTGGGCTGGAGTCCTCTCCAGAGAGGCTCAACAAGGAAAAATGCCACTCCCTACCCAATGTCTCCCACACCCACCCTTTTTTTGGGGTGCCTAGGTTGGTTTCCCCTGCACTCCCGACCTTAGCTTATTGATCCCACATTTCCATGGTGTGAGATCCTCTTTACTCTGGGCAGAAGTGAGCCCCCCCCTTAAAGGGAATTCGATGCCCCCCTAGAATAATCTCATCCCCCCACCCGACTTCTTTTGAAATGTGAACGTCCTTCCTTGACTGTCTAGCCACTCCCTCCCAGAAAAACTGGCTCTGATTGGAATTTCTGGCCTCCTAAGGCTCCCCACCCCGAAATCAGCCCCCAGCCTTGTTTCTGATGACAGTGTTATCCCAAGACCCTGCCCCCTGCCAGCCGACCCTCCTGGCCTTCCTCGTTGGGCCGCTCTGATTTCAGGCAGCAGGGGCTGCTGTGATGCCGTCCTGCTGGAGTGATTTATACTGTGAAATGAGTTGGCCAGATTGTGGGGTGCAGCTGGGTGGGGCAGCACACCTCTGGGGGGATAATGTCCCCACTCCCGAAAGCCTTTCCTCGGTCTCCCTTCCGTCCATCCCCCTTCTTCCTCCCCTCAACAGTGAGTTAGACTCAAGGGGGTGACAGAACCGAGAAGGGGGTGACAGTCCTCCATCCACGTGGCCTCTCTCTCTCTCCTCAGGACCCTCAGCCCTGGCCTTTTTCTTTAAGGTCCCCCGACCAATCCCCAGCCTAGGACGCCAACTTCTCCCACCCCTTGGCCCCTCACATCCTCTCCAGGAAGGGAGTGAGGGGCTGTGACATTTTTCCGGAGAAGATTTCAGAGCTGAGGCTTTGGTACCCCCAAACCCCCAATATTTTTGGACTGGCAGACTCAAGGGGCTGGAATCTCATGATTCCATGCCCGAGTCCGCCCATCCCTGACCATGGTTTTGGCTCTCCCACCCCGCCGTTCCCTGCGCTTCATCTCATGAGGATTTCTTTATGAGGCAAATTTATATTTTTTAATATCGGGGGGTGGACCACGCCGCCCTCCATCCGTGCTGCATGAAAAACATTCCACGTGCCCCTTGTCGCGCGTCTCCCATCCTGATCCCAGACCCATTCCTTAGCTATTTATCCCTTTCCTGGTTTCCGAAAGGCAATTATATCTATTATGTATAAGTAAATATATTATATATGGATGTGTGTGTGTGCGTGCGCGTGAGTGTGTGAGCGCTTCTGCAGCCTCGGCCTAGGTCACGTTGGCCCTCAAAGCGAGCCGTTGAATTGGAAACTGCTTCTAGAAACTCTGGCTCAGCCTGTCTCGGGCTGACCCTTTTCTGATCGTCTCGGCCCCTCTGATTGTTCCCGATGGTCTCTCTCCCTCTGTCTTTTCTCCTCCGCCTGTGTCCATCTGACCGTTTTCACTTGTCTCCTTTCTGACTGTCCCTGCCAATGCTCCAGCTGTCGTCTGACTCTGGGTTCGTTGGGGACATGAGATTTTATTTTTTGTGAGTGAGACTGAGGGATCGTAGATTTTTACAATCTGTATCTTTGACAATTCTGGGTGCGAGTGTGAGAGTGTGAGCAGGGCTTGCTCCTGCCAACCACAATTCAATGAATCCCCGACCCCCCTACCCCATGCTGTACTTGTGGTTCTCTTTTTGTATTTTGCATCTGACCCCGGGGGGCTGGGACAGATTGGCAATGGGCCGTCCCCTCTCCCCTTGGTTCTGCACTGTTGCCAATAAAAAGCTCTTAAAAACGCA&FORMAT_OBJECT=Alignment <html> <head><title>An Error Occurred</title></head> <body> <h1>An Error Occurred</h1> <p>500 Can't connect to blast.ncbi.nlm.nih.gov:443 (certificate verify failed)</p> </body> </html> --------------------------------------------------- --------------------- WARNING --------------------- MSG: req was POST https://blast.ncbi.nlm.nih.gov/Blast.cgi User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.7.8 Content-Length: 4109 Content-Type: application/x-www-form-urlencoded COMPOSITION_BASED_STATISTICS=off&EXPECT=1e-10&DESCRIPTIONS=100&ALIGNMENT_VIEW=Pairwise&FORMAT_TYPE=Text&SERVICE=plain&PROGRAM=blastn&ALIGNMENTS=50&FILTER=L&CMD=Put&DATABASE=nr&QUERY=%3ENM_006732+Homo+sapiens+FosB+proto-oncogene%2C+AP-1+transcription+factor+subunit+(FOSB)%2C+transcript+variant+1%2C+mRNA.%0D%0AATTCATAAGACTCAGAGCTACGGCCACGGCAGGGACACGCGGAACCAAGACTTGGAAACTTGATTGTTGTGGTTCTTCTTGGGGGTTATGAAATTTCATTAATCTTTTTTTTTCCGGGGAGAAAGTTTTTGGAAAGATTCTTCCAGATATTTCTTCATTTTCTTTTGGAGGACCGACTTACTTTTTTTGGTCTTCTTTATTACTCCCCTCCCCCCGTGGGACCCGCCGGACGCGTGGAGGAGACCGTAGCTGAAGCTGATTCTGTACAGCGGGACAGCGCTTTCTGCCCCTGGGGGAGCAACCCCTCCCTCGCCCCTGGGTCCTACGGAGCCTGCACTTTCAAGAGGTACAGCGGCATCCTGTGGGGGCCTGGGCACCGCAGGAAGACTGCACAGAAACTTTGCCATTGTTGGAACGGGACGTTGCTCCTTCCCCGAGCTTCCCCGGACAGCGTACTTTGAGGACTCGCTCAGCTCACCGGGGACTCCCACGGCTCACCCCGGACTTGCACCTTACTTCCCCAACCCGGCCATAGCCTTGGCTTCCCGGCGACCTCAGCGTGGTCACAGGGGCCCCCCTGTGCCCAGGGAAATGTTTCAGGCTTTCCCCGGAGACTACGACTCCGGCTCCCGGTGCAGCTCCTCACCCTCTGCCGAGTCTCAATATCTGTCTTCGGTGGACTCCTTCGGCAGTCCACCCACCGCCGCCGCCTCCCAGGAGTGCGCCGGTCTCGGGGAAATGCCCGGTTCCTTCGTGCCCACGGTCACCGCGATCACAACCAGCCAGGACCTCCAGTGGCTTGTGCAACCCACCCTCATCTCTTCCATGGCCCAGTCCCAGGGGCAGCCACTGGCCTCCCAGCCCCCGGTCGTCGACCCCTACGACATGCCGGGAACCAGCTACTCCACACCAGGCATGAGTGGCTACAGCAGTGGCGGAGCGAGTGGCAGTGGTGGGCCTTCCACCAGCGGAACTACCAGTGGGCCTGGGCCTGCCCGCCCAGCCCGAGCCCGGCCTAGGAGACCCCGAGAGGAGACGCTCACCCCAGAGGAAGAGGAGAAGCGAAGGGTGCGCCGGGAACGAAATAAACTAGCAGCAGCTAAATGCAGGAACCGGCGGAGGGAGCTGACCGACCGACTCCAGGCGGAGACAGATCAGTTGGAGGAAGAAAAAGCAGAGCTGGAGTCGGAGATCGCCGAGCTCCAAAAGGAGAAGGAACGTCTGGAGTTTGTGCTGGTGGCCCACAAACCGGGCTGCAAGATCCCCTACGAAGAGGGGCCCGGGCCGGGCCCGCTGGCGGAGGTGAGAGATTTGCCGGGCTCAGCACCGGCTAAGGAAGATGGCTTCAGCTGGCTGCTGCCGCCCCCGCCACCACCGCCCCTGCCCTTCCAGACCAGCCAAGACGCACCCCCCAACCTGACGGCTTCTCTCTTTACACACAGTGAAGTTCAAGTCCTCGGCGACCCCTTCCCCGTTGTTAACCCTTCGTACACTTCTTCGTTTGTCCTCACCTGCCCGGAGGTCTCCGCGTTCGCCGGCGCCCAACGCACCAGCGGCAGTGACCAGCCTTCCGATCCCCTGAACTCGCCCTCCCTCCTCGCTCTGTGAACTCTTTAGACACACAAAACAAACAAACACATGGGGGAGAGAGACTTGGAAGAGGAGGAGGAGGAGGAGAAGGAGGAGAGAGAGGGGAAGAGACAAAGTGGGTGTGTGGCCTCCCTGGCTCCTCCGTCTGACCCTCTGCGGCCACTGCGCCACTGCCATCGGACAGGAGGATTCCTTGTGTTTTGTCCTGCCTCTTGTTTCTGTGCCCCGGCGAGGCCGGAGAGCTGGTGACTTTGGGGACAGGGGGTGGGAAGGGGATGGACACCCCCAGCTGACTGTTGGCTCTCTGACGTCAACCCAAGCTCTGGGGATGGGTGGGGAGGGGGGCGGGTGACGCCCACCTTCGGGCAGTCCTGTGTGAGGATTAAGGGACGGGGGTGGGAGGTAGGCTGTGGGGTGGGCTGGAGTCCTCTCCAGAGAGGCTCAACAAGGAAAAATGCCACTCCCTACCCAATGTCTCCCACACCCACCCTTTTTTTGGGGTGCCTAGGTTGGTTTCCCCTGCACTCCCGACCTTAGCTTATTGATCCCACATTTCCATGGTGTGAGATCCTCTTTACTCTGGGCAGAAGTGAGCCCCCCCCTTAAAGGGAATTCGATGCCCCCCTAGAATAATCTCATCCCCCCACCCGACTTCTTTTGAAATGTGAACGTCCTTCCTTGACTGTCTAGCCACTCCCTCCCAGAAAAACTGGCTCTGATTGGAATTTCTGGCCTCCTAAGGCTCCCCACCCCGAAATCAGCCCCCAGCCTTGTTTCTGATGACAGTGTTATCCCAAGACCCTGCCCCCTGCCAGCCGACCCTCCTGGCCTTCCTCGTTGGGCCGCTCTGATTTCAGGCAGCAGGGGCTGCTGTGATGCCGTCCTGCTGGAGTGATTTATACTGTGAAATGAGTTGGCCAGATTGTGGGGTGCAGCTGGGTGGGGCAGCACACCTCTGGGGGGATAATGTCCCCACTCCCGAAAGCCTTTCCTCGGTCTCCCTTCCGTCCATCCCCCTTCTTCCTCCCCTCAACAGTGAGTTAGACTCAAGGGGGTGACAGAACCGAGAAGGGGGTGACAGTCCTCCATCCACGTGGCCTCTCTCTCTCTCCTCAGGACCCTCAGCCCTGGCCTTTTTCTTTAAGGTCCCCCGACCAATCCCCAGCCTAGGACGCCAACTTCTCCCACCCCTTGGCCCCTCACATCCTCTCCAGGAAGGGAGTGAGGGGCTGTGACATTTTTCCGGAGAAGATTTCAGAGCTGAGGCTTTGGTACCCCCAAACCCCCAATATTTTTGGACTGGCAGACTCAAGGGGCTGGAATCTCATGATTCCATGCCCGAGTCCGCCCATCCCTGACCATGGTTTTGGCTCTCCCACCCCGCCGTTCCCTGCGCTTCATCTCATGAGGATTTCTTTATGAGGCAAATTTATATTTTTTAATATCGGGGGGTGGACCACGCCGCCCTCCATCCGTGCTGCATGAAAAACATTCCACGTGCCCCTTGTCGCGCGTCTCCCATCCTGATCCCAGACCCATTCCTTAGCTATTTATCCCTTTCCTGGTTTCCGAAAGGCAATTATATCTATTATGTATAAGTAAATATATTATATATGGATGTGTGTGTGTGCGTGCGCGTGAGTGTGTGAGCGCTTCTGCAGCCTCGGCCTAGGTCACGTTGGCCCTCAAAGCGAGCCGTTGAATTGGAAACTGCTTCTAGAAACTCTGGCTCAGCCTGTCTCGGGCTGACCCTTTTCTGATCGTCTCGGCCCCTCTGATTGTTCCCGATGGTCTCTCTCCCTCTGTCTTTTCTCCTCCGCCTGTGTCCATCTGACCGTTTTCACTTGTCTCCTTTCTGACTGTCCCTGCCAATGCTCCAGCTGTCGTCTGACTCTGGGTTCGTTGGGGACATGAGATTTTATTTTTTGTGAGTGAGACTGAGGGATCGTAGATTTTTACAATCTGTATCTTTGACAATTCTGGGTGCGAGTGTGAGAGTGTGAGCAGGGCTTGCTCCTGCCAACCACAATTCAATGAATCCCCGACCCCCCTACCCCATGCTGTACTTGTGGTTCTCTTTTTGTATTTTGCATCTGACCCCGGGGGGCTGGGACAGATTGGCAATGGGCCGTCCCCTCTCCCCTTGGTTCTGCACTGTTGCCAATAAAAAGCTCTTAAAAACGCA&FORMAT_OBJECT=Alignment <html> <head><title>An Error Occurred</title></head> <body> <h1>An Error Occurred</h1> <p>500 Can't connect to blast.ncbi.nlm.nih.gov:443 (certificate verify failed)</p> </body> </html> --------------------------------------------------- --------------------- WARNING --------------------- MSG: req was POST https://blast.ncbi.nlm.nih.gov/Blast.cgi User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.7.8 Content-Length: 4109 Content-Type: application/x-www-form-urlencoded DATABASE=nr&ALIGNMENTS=50&CMD=Put&FILTER=L&QUERY=%3ENM_006732+Homo+sapiens+FosB+proto-oncogene%2C+AP-1+transcription+factor+subunit+(FOSB)%2C+transcript+variant+1%2C+mRNA.%0D%0AATTCATAAGACTCAGAGCTACGGCCACGGCAGGGACACGCGGAACCAAGACTTGGAAACTTGATTGTTGTGGTTCTTCTTGGGGGTTATGAAATTTCATTAATCTTTTTTTTTCCGGGGAGAAAGTTTTTGGAAAGATTCTTCCAGATATTTCTTCATTTTCTTTTGGAGGACCGACTTACTTTTTTTGGTCTTCTTTATTACTCCCCTCCCCCCGTGGGACCCGCCGGACGCGTGGAGGAGACCGTAGCTGAAGCTGATTCTGTACAGCGGGACAGCGCTTTCTGCCCCTGGGGGAGCAACCCCTCCCTCGCCCCTGGGTCCTACGGAGCCTGCACTTTCAAGAGGTACAGCGGCATCCTGTGGGGGCCTGGGCACCGCAGGAAGACTGCACAGAAACTTTGCCATTGTTGGAACGGGACGTTGCTCCTTCCCCGAGCTTCCCCGGACAGCGTACTTTGAGGACTCGCTCAGCTCACCGGGGACTCCCACGGCTCACCCCGGACTTGCACCTTACTTCCCCAACCCGGCCATAGCCTTGGCTTCCCGGCGACCTCAGCGTGGTCACAGGGGCCCCCCTGTGCCCAGGGAAATGTTTCAGGCTTTCCCCGGAGACTACGACTCCGGCTCCCGGTGCAGCTCCTCACCCTCTGCCGAGTCTCAATATCTGTCTTCGGTGGACTCCTTCGGCAGTCCACCCACCGCCGCCGCCTCCCAGGAGTGCGCCGGTCTCGGGGAAATGCCCGGTTCCTTCGTGCCCACGGTCACCGCGATCACAACCAGCCAGGACCTCCAGTGGCTTGTGCAACCCACCCTCATCTCTTCCATGGCCCAGTCCCAGGGGCAGCCACTGGCCTCCCAGCCCCCGGTCGTCGACCCCTACGACATGCCGGGAACCAGCTACTCCACACCAGGCATGAGTGGCTACAGCAGTGGCGGAGCGAGTGGCAGTGGTGGGCCTTCCACCAGCGGAACTACCAGTGGGCCTGGGCCTGCCCGCCCAGCCCGAGCCCGGCCTAGGAGACCCCGAGAGGAGACGCTCACCCCAGAGGAAGAGGAGAAGCGAAGGGTGCGCCGGGAACGAAATAAACTAGCAGCAGCTAAATGCAGGAACCGGCGGAGGGAGCTGACCGACCGACTCCAGGCGGAGACAGATCAGTTGGAGGAAGAAAAAGCAGAGCTGGAGTCGGAGATCGCCGAGCTCCAAAAGGAGAAGGAACGTCTGGAGTTTGTGCTGGTGGCCCACAAACCGGGCTGCAAGATCCCCTACGAAGAGGGGCCCGGGCCGGGCCCGCTGGCGGAGGTGAGAGATTTGCCGGGCTCAGCACCGGCTAAGGAAGATGGCTTCAGCTGGCTGCTGCCGCCCCCGCCACCACCGCCCCTGCCCTTCCAGACCAGCCAAGACGCACCCCCCAACCTGACGGCTTCTCTCTTTACACACAGTGAAGTTCAAGTCCTCGGCGACCCCTTCCCCGTTGTTAACCCTTCGTACACTTCTTCGTTTGTCCTCACCTGCCCGGAGGTCTCCGCGTTCGCCGGCGCCCAACGCACCAGCGGCAGTGACCAGCCTTCCGATCCCCTGAACTCGCCCTCCCTCCTCGCTCTGTGAACTCTTTAGACACACAAAACAAACAAACACATGGGGGAGAGAGACTTGGAAGAGGAGGAGGAGGAGGAGAAGGAGGAGAGAGAGGGGAAGAGACAAAGTGGGTGTGTGGCCTCCCTGGCTCCTCCGTCTGACCCTCTGCGGCCACTGCGCCACTGCCATCGGACAGGAGGATTCCTTGTGTTTTGTCCTGCCTCTTGTTTCTGTGCCCCGGCGAGGCCGGAGAGCTGGTGACTTTGGGGACAGGGGGTGGGAAGGGGATGGACACCCCCAGCTGACTGTTGGCTCTCTGACGTCAACCCAAGCTCTGGGGATGGGTGGGGAGGGGGGCGGGTGACGCCCACCTTCGGGCAGTCCTGTGTGAGGATTAAGGGACGGGGGTGGGAGGTAGGCTGTGGGGTGGGCTGGAGTCCTCTCCAGAGAGGCTCAACAAGGAAAAATGCCACTCCCTACCCAATGTCTCCCACACCCACCCTTTTTTTGGGGTGCCTAGGTTGGTTTCCCCTGCACTCCCGACCTTAGCTTATTGATCCCACATTTCCATGGTGTGAGATCCTCTTTACTCTGGGCAGAAGTGAGCCCCCCCCTTAAAGGGAATTCGATGCCCCCCTAGAATAATCTCATCCCCCCACCCGACTTCTTTTGAAATGTGAACGTCCTTCCTTGACTGTCTAGCCACTCCCTCCCAGAAAAACTGGCTCTGATTGGAATTTCTGGCCTCCTAAGGCTCCCCACCCCGAAATCAGCCCCCAGCCTTGTTTCTGATGACAGTGTTATCCCAAGACCCTGCCCCCTGCCAGCCGACCCTCCTGGCCTTCCTCGTTGGGCCGCTCTGATTTCAGGCAGCAGGGGCTGCTGTGATGCCGTCCTGCTGGAGTGATTTATACTGTGAAATGAGTTGGCCAGATTGTGGGGTGCAGCTGGGTGGGGCAGCACACCTCTGGGGGGATAATGTCCCCACTCCCGAAAGCCTTTCCTCGGTCTCCCTTCCGTCCATCCCCCTTCTTCCTCCCCTCAACAGTGAGTTAGACTCAAGGGGGTGACAGAACCGAGAAGGGGGTGACAGTCCTCCATCCACGTGGCCTCTCTCTCTCTCCTCAGGACCCTCAGCCCTGGCCTTTTTCTTTAAGGTCCCCCGACCAATCCCCAGCCTAGGACGCCAACTTCTCCCACCCCTTGGCCCCTCACATCCTCTCCAGGAAGGGAGTGAGGGGCTGTGACATTTTTCCGGAGAAGATTTCAGAGCTGAGGCTTTGGTACCCCCAAACCCCCAATATTTTTGGACTGGCAGACTCAAGGGGCTGGAATCTCATGATTCCATGCCCGAGTCCGCCCATCCCTGACCATGGTTTTGGCTCTCCCACCCCGCCGTTCCCTGCGCTTCATCTCATGAGGATTTCTTTATGAGGCAAATTTATATTTTTTAATATCGGGGGGTGGACCACGCCGCCCTCCATCCGTGCTGCATGAAAAACATTCCACGTGCCCCTTGTCGCGCGTCTCCCATCCTGATCCCAGACCCATTCCTTAGCTATTTATCCCTTTCCTGGTTTCCGAAAGGCAATTATATCTATTATGTATAAGTAAATATATTATATATGGATGTGTGTGTGTGCGTGCGCGTGAGTGTGTGAGCGCTTCTGCAGCCTCGGCCTAGGTCACGTTGGCCCTCAAAGCGAGCCGTTGAATTGGAAACTGCTTCTAGAAACTCTGGCTCAGCCTGTCTCGGGCTGACCCTTTTCTGATCGTCTCGGCCCCTCTGATTGTTCCCGATGGTCTCTCTCCCTCTGTCTTTTCTCCTCCGCCTGTGTCCATCTGACCGTTTTCACTTGTCTCCTTTCTGACTGTCCCTGCCAATGCTCCAGCTGTCGTCTGACTCTGGGTTCGTTGGGGACATGAGATTTTATTTTTTGTGAGTGAGACTGAGGGATCGTAGATTTTTACAATCTGTATCTTTGACAATTCTGGGTGCGAGTGTGAGAGTGTGAGCAGGGCTTGCTCCTGCCAACCACAATTCAATGAATCCCCGACCCCCCTACCCCATGCTGTACTTGTGGTTCTCTTTTTGTATTTTGCATCTGACCCCGGGGGGCTGGGACAGATTGGCAATGGGCCGTCCCCTCTCCCCTTGGTTCTGCACTGTTGCCAATAAAAAGCTCTTAAAAACGCA&FORMAT_OBJECT=Alignment&COMPOSITION_BASED_STATISTICS=off&DESCRIPTIONS=100&EXPECT=1e-10&FORMAT_TYPE=Text&ALIGNMENT_VIEW=Pairwise&SERVICE=plain&PROGRAM=blastn <html> <head><title>An Error Occurred</title></head> <body> <h1>An Error Occurred</h1> <p>500 Can't connect to blast.ncbi.nlm.nih.gov:443 (certificate verify failed)</p> </body> </html> --------------------------------------------------- --------------------- WARNING --------------------- MSG: req was POST https://blast.ncbi.nlm.nih.gov/Blast.cgi User-Agent: bioperl-Bio_Tools_Run_RemoteBlast/1.7.8 Content-Length: 4109 Content-Type: application/x-www-form-urlencoded ALIGNMENT_VIEW=Pairwise&CMD=Put&FILTER=L&QUERY=%3ENM_006732+Homo+sapiens+FosB+proto-oncogene%2C+AP-1+transcription+factor+subunit+(FOSB)%2C+transcript+variant+1%2C+mRNA.%0D%0AATTCATAAGACTCAGAGCTACGGCCACGGCAGGGACACGCGGAACCAAGACTTGGAAACTTGATTGTTGTGGTTCTTCTTGGGGGTTATGAAATTTCATTAATCTTTTTTTTTCCGGGGAGAAAGTTTTTGGAAAGATTCTTCCAGATATTTCTTCATTTTCTTTTGGAGGACCGACTTACTTTTTTTGGTCTTCTTTATTACTCCCCTCCCCCCGTGGGACCCGCCGGACGCGTGGAGGAGACCGTAGCTGAAGCTGATTCTGTACAGCGGGACAGCGCTTTCTGCCCCTGGGGGAGCAACCCCTCCCTCGCCCCTGGGTCCTACGGAGCCTGCACTTTCAAGAGGTACAGCGGCATCCTGTGGGGGCCTGGGCACCGCAGGAAGACTGCACAGAAACTTTGCCATTGTTGGAACGGGACGTTGCTCCTTCCCCGAGCTTCCCCGGACAGCGTACTTTGAGGACTCGCTCAGCTCACCGGGGACTCCCACGGCTCACCCCGGACTTGCACCTTACTTCCCCAACCCGGCCATAGCCTTGGCTTCCCGGCGACCTCAGCGTGGTCACAGGGGCCCCCCTGTGCCCAGGGAAATGTTTCAGGCTTTCCCCGGAGACTACGACTCCGGCTCCCGGTGCAGCTCCTCACCCTCTGCCGAGTCTCAATATCTGTCTTCGGTGGACTCCTTCGGCAGTCCACCCACCGCCGCCGCCTCCCAGGAGTGCGCCGGTCTCGGGGAAATGCCCGGTTCCTTCGTGCCCACGGTCACCGCGATCACAACCAGCCAGGACCTCCAGTGGCTTGTGCAACCCACCCTCATCTCTTCCATGGCCCAGTCCCAGGGGCAGCCACTGGCCTCCCAGCCCCCGGTCGTCGACCCCTACGACATGCCGGGAACCAGCTACTCCACACCAGGCATGAGTGGCTACAGCAGTGGCGGAGCGAGTGGCAGTGGTGGGCCTTCCACCAGCGGAACTACCAGTGGGCCTGGGCCTGCCCGCCCAGCCCGAGCCCGGCCTAGGAGACCCCGAGAGGAGACGCTCACCCCAGAGGAAGAGGAGAAGCGAAGGGTGCGCCGGGAACGAAATAAACTAGCAGCAGCTAAATGCAGGAACCGGCGGAGGGAGCTGACCGACCGACTCCAGGCGGAGACAGATCAGTTGGAGGAAGAAAAAGCAGAGCTGGAGTCGGAGATCGCCGAGCTCCAAAAGGAGAAGGAACGTCTGGAGTTTGTGCTGGTGGCCCACAAACCGGGCTGCAAGATCCCCTACGAAGAGGGGCCCGGGCCGGGCCCGCTGGCGGAGGTGAGAGATTTGCCGGGCTCAGCACCGGCTAAGGAAGATGGCTTCAGCTGGCTGCTGCCGCCCCCGCCACCACCGCCCCTGCCCTTCCAGACCAGCCAAGACGCACCCCCCAACCTGACGGCTTCTCTCTTTACACACAGTGAAGTTCAAGTCCTCGGCGACCCCTTCCCCGTTGTTAACCCTTCGTACACTTCTTCGTTTGTCCTCACCTGCCCGGAGGTCTCCGCGTTCGCCGGCGCCCAACGCACCAGCGGCAGTGACCAGCCTTCCGATCCCCTGAACTCGCCCTCCCTCCTCGCTCTGTGAACTCTTTAGACACACAAAACAAACAAACACATGGGGGAGAGAGACTTGGAAGAGGAGGAGGAGGAGGAGAAGGAGGAGAGAGAGGGGAAGAGACAAAGTGGGTGTGTGGCCTCCCTGGCTCCTCCGTCTGACCCTCTGCGGCCACTGCGCCACTGCCATCGGACAGGAGGATTCCTTGTGTTTTGTCCTGCCTCTTGTTTCTGTGCCCCGGCGAGGCCGGAGAGCTGGTGACTTTGGGGACAGGGGGTGGGAAGGGGATGGACACCCCCAGCTGACTGTTGGCTCTCTGACGTCAACCCAAGCTCTGGGGATGGGTGGGGAGGGGGGCGGGTGACGCCCACCTTCGGGCAGTCCTGTGTGAGGATTAAGGGACGGGGGTGGGAGGTAGGCTGTGGGGTGGGCTGGAGTCCTCTCCAGAGAGGCTCAACAAGGAAAAATGCCACTCCCTACCCAATGTCTCCCACACCCACCCTTTTTTTGGGGTGCCTAGGTTGGTTTCCCCTGCACTCCCGACCTTAGCTTATTGATCCCACATTTCCATGGTGTGAGATCCTCTTTACTCTGGGCAGAAGTGAGCCCCCCCCTTAAAGGGAATTCGATGCCCCCCTAGAATAATCTCATCCCCCCACCCGACTTCTTTTGAAATGTGAACGTCCTTCCTTGACTGTCTAGCCACTCCCTCCCAGAAAAACTGGCTCTGATTGGAATTTCTGGCCTCCTAAGGCTCCCCACCCCGAAATCAGCCCCCAGCCTTGTTTCTGATGACAGTGTTATCCCAAGACCCTGCCCCCTGCCAGCCGACCCTCCTGGCCTTCCTCGTTGGGCCGCTCTGATTTCAGGCAGCAGGGGCTGCTGTGATGCCGTCCTGCTGGAGTGATTTATACTGTGAAATGAGTTGGCCAGATTGTGGGGTGCAGCTGGGTGGGGCAGCACACCTCTGGGGGGATAATGTCCCCACTCCCGAAAGCCTTTCCTCGGTCTCCCTTCCGTCCATCCCCCTTCTTCCTCCCCTCAACAGTGAGTTAGACTCAAGGGGGTGACAGAACCGAGAAGGGGGTGACAGTCCTCCATCCACGTGGCCTCTCTCTCTCTCCTCAGGACCCTCAGCCCTGGCCTTTTTCTTTAAGGTCCCCCGACCAATCCCCAGCCTAGGACGCCAACTTCTCCCACCCCTTGGCCCCTCACATCCTCTCCAGGAAGGGAGTGAGGGGCTGTGACATTTTTCCGGAGAAGATTTCAGAGCTGAGGCTTTGGTACCCCCAAACCCCCAATATTTTTGGACTGGCAGACTCAAGGGGCTGGAATCTCATGATTCCATGCCCGAGTCCGCCCATCCCTGACCATGGTTTTGGCTCTCCCACCCCGCCGTTCCCTGCGCTTCATCTCATGAGGATTTCTTTATGAGGCAAATTTATATTTTTTAATATCGGGGGGTGGACCACGCCGCCCTCCATCCGTGCTGCATGAAAAACATTCCACGTGCCCCTTGTCGCGCGTCTCCCATCCTGATCCCAGACCCATTCCTTAGCTATTTATCCCTTTCCTGGTTTCCGAAAGGCAATTATATCTATTATGTATAAGTAAATATATTATATATGGATGTGTGTGTGTGCGTGCGCGTGAGTGTGTGAGCGCTTCTGCAGCCTCGGCCTAGGTCACGTTGGCCCTCAAAGCGAGCCGTTGAATTGGAAACTGCTTCTAGAAACTCTGGCTCAGCCTGTCTCGGGCTGACCCTTTTCTGATCGTCTCGGCCCCTCTGATTGTTCCCGATGGTCTCTCTCCCTCTGTCTTTTCTCCTCCGCCTGTGTCCATCTGACCGTTTTCACTTGTCTCCTTTCTGACTGTCCCTGCCAATGCTCCAGCTGTCGTCTGACTCTGGGTTCGTTGGGGACATGAGATTTTATTTTTTGTGAGTGAGACTGAGGGATCGTAGATTTTTACAATCTGTATCTTTGACAATTCTGGGTGCGAGTGTGAGAGTGTGAGCAGGGCTTGCTCCTGCCAACCACAATTCAATGAATCCCCGACCCCCCTACCCCATGCTGTACTTGTGGTTCTCTTTTTGTATTTTGCATCTGACCCCGGGGGGCTGGGACAGATTGGCAATGGGCCGTCCCCTCTCCCCTTGGTTCTGCACTGTTGCCAATAAAAAGCTCTTAAAAACGCA&FORMAT_OBJECT=Alignment&COMPOSITION_BASED_STATISTICS=off&EXPECT=1e-10&DESCRIPTIONS=100&FORMAT_TYPE=Text&SERVICE=plain&PROGRAM=blastn&ALIGNMENTS=50&DATABASE=nr <html> <head><title>An Error Occurred</title></head> <body> <h1>An Error Occurred</h1> <p>500 Can't connect to blast.ncbi.nlm.nih.gov:443 (certificate verify failed)</p> </body> </html> --------------------------------------------------- # Failed test at t/Perl.t line 141. # Failed test 'undef isa 'Bio::Search::Result::ResultI'' # at t/Perl.t line 142. # undef isn't defined # Failed test at t/Perl.t line 141. # Failed test at t/Perl.t line 141. # Failed test 'undef isa 'Bio::Search::Result::ResultI'' # at t/Perl.t line 142. # Failed test 'undef isa 'Bio::Search::Result::ResultI'' # at t/Perl.t line 142. # undef isn't defined # undef isn't defined # Looks like you failed 2 tests of 31. # Failed test at t/Perl.t line 141. # Failed test 'undef isa 'Bio::Search::Result::ResultI'' # at t/Perl.t line 142. # undef isn't defined t/Perl.t ................. 1..31 ok 1 - use Bio::Perl; ok 2 ok 3 - An object of class 'Bio::Seq' isa 'Bio::SeqI' ok 4 ok 5 - An object of class 'Bio::Seq::RichSeq' isa 'Bio::SeqI' ok 6 ok 7 - An object of class 'Bio::Seq' isa 'Bio::SeqI' ok 8 - An object of class 'Bio::Seq' isa 'Bio::SeqI' ok 9 ok 10 ok 11 - An object of class 'Bio::Seq' isa 'Bio::SeqI' ok 12 ok 13 - An object of class 'Bio::Seq' isa 'Bio::SeqI' ok 14 ok 15 - An object of class 'Bio::PrimarySeq' isa 'Bio::PrimarySeqI' ok 16 ok 17 ok 18 ok 19 ok 20 ok 21 - An object of class 'Bio::Seq::RichSeq' isa 'Bio::SeqI' ok 22 ok 23 - An object of class 'Bio::Seq::RichSeq' isa 'Bio::SeqI' ok 24 # skip problem connecting to GenBank: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:21 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:97 # ----------------------------------------------------------- # ok 25 # skip problem connecting to GenBank: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:21 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:97 # ----------------------------------------------------------- # ok 24 # skip problem connecting to GenBank: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AI129902 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:97 # ----------------------------------------------------------- # ok 25 # skip problem connecting to GenBank: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AI129902 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:97 # ----------------------------------------------------------- # ok 26 ok 27 - An object of class 'Bio::Seq::RichSeq' isa 'Bio::SeqI' ok 26 ok 27 - An object of class 'Bio::Seq::RichSeq' isa 'Bio::SeqI' ok 28 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AAC06201 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 29 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AAC06201 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 28 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:25 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 29 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:25 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 28 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AAC06201 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 29 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: acc AAC06201 does not exist # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:203 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 28 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:25 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # ok 29 # skip problem connecting to RefSeq: # ------------- EXCEPTION: Bio::Root::Exception ------------- # MSG: WebDBSeqI Request Error: # 500 Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # Content-Type: text/plain # Client-Date: Sat, 10 Jun 2028 12:00:25 GMT # Client-Warning: Internal response # # Can't connect to eutils.ncbi.nlm.nih.gov:443 (certificate verify failed) # # SSL connect attempt failed error:0A000086:SSL routines::certificate verify failed at /usr/share/perl5/LWP/Protocol/http.pm line 49. # # STACK: Error::throw # STACK: Bio::Root::Root::throw /usr/share/perl5/Bio/Root/Root.pm:449 # STACK: Bio::DB::WebDBSeqI::_stream_request /usr/share/perl5/Bio/DB/WebDBSeqI.pm:783 # STACK: Bio::DB::NCBIHelper::get_seq_stream /usr/share/perl5/Bio/DB/NCBIHelper.pm:326 # STACK: Bio::DB::NCBIHelper::get_Stream_by_acc /usr/share/perl5/Bio/DB/NCBIHelper.pm:639 # STACK: Bio::DB::WebDBSeqI::get_Seq_by_acc /usr/share/perl5/Bio/DB/WebDBSeqI.pm:194 # STACK: Bio::Perl::get_sequence /<<PKGBUILDDIR>>/blib/lib/Bio/Perl.pm:285 # STACK: t/Perl.t:123 # ----------------------------------------------------------- # not ok 30 not ok 31 - undef isa 'Bio::Search::Result::ResultI' not ok 30 not ok 30 not ok 31 - undef isa 'Bio::Search::Result::ResultI' not ok 31 - undef isa 'Bio::Search::Result::ResultI' not ok 30 not ok 31 - undef isa 'Bio::Search::Result::ResultI' Dubious, test returned 2 (wstat 512, 0x200) All 31 subtests passed (less 12 skipped subtests: 19 okay) Test Summary Report ------------------- t/Perl.t (Wstat: 512 (exited 2) Tests: 47 Failed: 16) Failed tests: 28, 28, 28, 28-29, 29, 29, 29-30, 30, 30 30-31, 31, 31, 31 Non-zero exit status: 2 Parse errors: Tests out of sequence. Found (24) but expected (26) Tests out of sequence. Found (25) but expected (27) Tests out of sequence. Found (26) but expected (28) Tests out of sequence. Found (27) but expected (29) Tests out of sequence. Found (26) but expected (30) Displayed the first 5 of 23 TAP syntax errors. Re-run prove with the -p option to see them all. Files=7, Tests=49, 13 wallclock secs ( 0.03 usr 0.00 sys + 0.34 cusr 0.12 csys = 0.49 CPU) Result: FAIL Failed 1/7 test programs. 16/49 subtests failed. make[1]: *** [Makefile:878: test_dynamic] Error 2 make[1]: Leaving directory '/<<PKGBUILDDIR>>' dh_auto_test: error: make -j2 test TEST_VERBOSE=1 returned exit code 2 make: *** [debian/rules:4: build] Error 25 dpkg-buildpackage: error: debian/rules build subprocess returned exit status 2 -------------------------------------------------------------------------------- The above is just how the build ends and not necessarily the most relevant part. If required, the full build log is available here: https://people.debian.org/~sanvila/build-logs/ftbfs-future/ About the archive rebuild: This is an effort to keep trixie free from FTBFS bugs during its lifetime as a supported distribution, as explained here: https://lists.debian.org/debian-devel/2024/05/msg00414.html (While they are not yet, please note that the bugs will be RC for trixie) The build was made using sbuild and a reduced chroot with only build-essential packages. If you could not reproduce the bug please contact me privately, as I am willing to provide ssh access to a virtual machine where the bug is fully reproducible. If this is really a bug in one of the build-depends, please use reassign and affects, so that this is still visible in the BTS web page for this package. Thanks.
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--- Begin Message ---Source: libbio-procedural-perl Source-Version: 1.7.4-3 Done: Andreas Tille <ti...@debian.org> We believe that the bug you reported is fixed in the latest version of libbio-procedural-perl, which is due to be installed in the Debian FTP archive. A summary of the changes between this version and the previous one is attached. Thank you for reporting the bug, which will now be closed. If you have further comments please address them to 1078...@bugs.debian.org, and the maintainer will reopen the bug report if appropriate. Debian distribution maintenance software pp. Andreas Tille <ti...@debian.org> (supplier of updated libbio-procedural-perl package) (This message was generated automatically at their request; if you believe that there is a problem with it please contact the archive administrators by mailing ftpmas...@ftp-master.debian.org) -----BEGIN PGP SIGNED MESSAGE----- Hash: SHA512 Format: 1.8 Date: Sun, 16 Feb 2025 10:44:35 +0100 Source: libbio-procedural-perl Architecture: source Version: 1.7.4-3 Distribution: unstable Urgency: medium Maintainer: Debian Med Packaging Team <debian-med-packag...@lists.alioth.debian.org> Changed-By: Andreas Tille <ti...@debian.org> Closes: 1078626 Changes: libbio-procedural-perl (1.7.4-3) unstable; urgency=medium . * Team upload. * Fix maintainer address * Ignore errors accessing remote hosts Closes: #1078626 * Standards-Version: 4.7.0 (routine-update) * debhelper-compat 13 (routine-update) * watch file standard 4 (routine-update) Checksums-Sha1: 6b00a267182d02f345281ba274d785ca545b1eb2 2376 libbio-procedural-perl_1.7.4-3.dsc fe748b3fc22928538d0a637ad352bfa54c8a83d0 2252 libbio-procedural-perl_1.7.4-3.debian.tar.xz 64a818ecb8d4d2676fd3c45f1ee3ba7ddda9c5ef 8082 libbio-procedural-perl_1.7.4-3_amd64.buildinfo Checksums-Sha256: f2be603572e0c1c432eb7bb9689067f6f5ae6771dba10fe77a6d68acfa6b1b2d 2376 libbio-procedural-perl_1.7.4-3.dsc 6ca0243c82a0a5143520984327740b1f20e93e9c2fb259c83188df849f13a08c 2252 libbio-procedural-perl_1.7.4-3.debian.tar.xz de5beb50dd5810bb80879653b1ee812531d74149288d76e23bc3591f41fdd51a 8082 libbio-procedural-perl_1.7.4-3_amd64.buildinfo Files: 882907d357f038f5cd567bf92c1eb916 2376 perl optional libbio-procedural-perl_1.7.4-3.dsc 9be0298048c78f3e69e6e46a426291da 2252 perl optional libbio-procedural-perl_1.7.4-3.debian.tar.xz 3e3d4e1634bff37f0f4ec5b0f74818f0 8082 perl optional libbio-procedural-perl_1.7.4-3_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmextNkRHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtHtdQ/9Fws+8DlmtDKpPv7muNckR8OzToUzsCmS VS2E/LCTpBtLeE3nAipcKxf+IkUJjJ7e5SLXLw3quBoZNfhIEM/LKkJOJiCYpKH1 +S21IcattvBVZ0k11c/U6zGm38xIOnfN5JEPDpqedBIiL6xPOI4Thzx7u5WY8AHy t94ZNBMRJ2OPKOlGDQ/IblVCsxumguDT4FIdFrL6vUS+/bRNip83cMJtxrT2IVoD rKgwEoZ9J1LYug5d/+pGgEpNuStMrLsdnqNu0h351YEv4gHD0oRWkHb4qTRK4V41 /T1+nvL9ZkroGiuAd0zNT9+BsQgI2HSqV+1ftpmghJlwDHKIsV9NG4Y45h1tv/F3 gI52mbVOgb43S/vL8vbuKmpnM1FEus0AFA1PujnuUY5se+zKHHXa8OV3r5WHRr1O wP7Tm7mvupE9P1yAWEm00dvCixWfsMx5tv39zSR2iCHJYh1XombXVJrResbZ2EfM T/FyfKVq5vgXKqAoEM9C27zxAsC/BGmIBeo0FQPmGJ5cK+5FObPrijV7KR7aw4UK +GmO0KcrAP+9+233ZJJL9JPAig/2zRhly4aQCMkaXHvOlfXKGOeQVgZcPqpLkCy6 wkDPu2fVeWxBPY0Ox87n1xxP2e42FSky61xlFTxWD8Fj++WZMCBr/dY+MvUeNwS4 7eeY61KF/C8= =CRiW -----END PGP SIGNATURE-----
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