Your message dated Sun, 16 Feb 2025 15:51:27 +0000 with message-id <e1tjgvx-00camz...@fasolo.debian.org> and subject line Bug#1078626: fixed in libbio-procedural-perl 1.7.4-4 has caused the Debian Bug report #1078626, regarding libbio-procedural-perl: Tries to access the network during build 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: 1.7.4-4 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 15:54:10 +0100 Source: libbio-procedural-perl Architecture: source Version: 1.7.4-4 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 (1.7.4-4) unstable; urgency=medium . * Team upload. * Do not even attempt to access the internet Closes: #1078626 Checksums-Sha1: 9cf0a528b6ac3aed1483271b0ab7695b6be63e33 2376 libbio-procedural-perl_1.7.4-4.dsc 4e94de88f02a1e484f34dac25bbcdab14e45a75c 2324 libbio-procedural-perl_1.7.4-4.debian.tar.xz b885e8cf74c381356e34183636dfd75e1144abef 8082 libbio-procedural-perl_1.7.4-4_amd64.buildinfo Checksums-Sha256: 7548bcf988f30be2fcd0003c1f4a99c4ed06f14e3fc8fac74d49f2f37f67d754 2376 libbio-procedural-perl_1.7.4-4.dsc 669bd2fb2bd5048db460038dfeba1d9e85aca4fd6bf37f353ce1d35b01b35dd2 2324 libbio-procedural-perl_1.7.4-4.debian.tar.xz 479a4f1f8c8a1780d33d49ab6e1a04de2e0acbf0c02261998e3bb03d30b9df49 8082 libbio-procedural-perl_1.7.4-4_amd64.buildinfo Files: bd3bd442ad03447b70704723a67bcd70 2376 perl optional libbio-procedural-perl_1.7.4-4.dsc b4a3268499806f9ca2d7f6ce515ffe95 2324 perl optional libbio-procedural-perl_1.7.4-4.debian.tar.xz f7bbbd077ae2963abb413040b51f4469 8082 perl optional libbio-procedural-perl_1.7.4-4_amd64.buildinfo -----BEGIN PGP SIGNATURE----- iQJFBAEBCgAvFiEE8fAHMgoDVUHwpmPKV4oElNHGRtEFAmex/dARHHRpbGxlQGRl Ymlhbi5vcmcACgkQV4oElNHGRtFVVw//Twl9lSQC0b7aumyeRCqOcoybJ+YGEI0Q 8gF38nPmaYV2aGkjPdVNaAnxkzq9/EEgMOI/f9ZWScm5udwHSQuaGki7AKUFLPM+ yZTjP73B/5MlR1a8ffmnLjNIZqwMC0bwf+rTH/eCs5tC5b89DZULXLIeWnLoHWQB E/BxUfrmfjJX8VauJ451CuiXnCgCJbvGcb5SZd4bQqVF1g5wU5KWkphAc1pM2C9q 8EeAt8vdvnUsMXyiQ5N7KX5N3T08tH8/Pudud8YJjA6krMYAekOSzOB/jW096gLD KbEjMUkCacUF315MbJ0g5k9fm6SYcYznhe1Puvk9FuelgLg9LL6MVRoGMh44gflE AYzC1DjaDGvxKsTyOAO0OOvn/veUu7tIeCNIUIyDHeAge8h6dA0HDVJedIsXvVTE dkMjv1jIKfiEgI1t+lDNGZnrmd+metTYvLw4Y4JhqSZ2ufXJRDpABbxXIXPVJmHy PgQqh4b55ynhRpW7fUOCrz8qr6s6pMq4FRIt9Q9iGOXir4DhIpo1SP2pEVB8GxlF M6S6DGWFFcsP2ZO17CDX/HTHwHguNvbR1BEW8OAAvbYqttH+WMdf3hmqJ+h7oR8M IJ+PuB0RQupyDciHK4l4afPP34/1wSOkoztD1uQ+LPyhZNO3fEBhF9KbX3muxvdu e7b7VkqlzWQ= =5rkc -----END PGP SIGNATURE-----
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