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From: metabase:user:320bfe00-2aae-11df-837a-5e0a49663a4f
Subject: FAIL BioPerl-DB-1.006900 v5.22.2 GNU/Linux
Date: 2017-04-10T14:18:41Z
This distribution has been tested as part of the CPAN Testers
project, supporting the Perl programming language. See
http://wiki.cpantesters.org/ for more information or email
questions to cpan-testers-discuss@perl.org
--
Dear Christopher Fields,
This is a computer-generated report for BioPerl-DB-1.006900
on perl 5.22.2, created by CPAN-Reporter-1.2018.
Thank you for uploading your work to CPAN. However, there was a problem
testing your distribution.
If you think this report is invalid, please consult the CPAN Testers Wiki
for suggestions on how to avoid getting FAIL reports for missing library
or binary dependencies, unsupported operating systems, and so on:
http://wiki.cpantesters.org/wiki/CPANAuthorNotes
Sections of this report:
* Tester comments
* Program output
* Prerequisites
* Environment and other context
------------------------------
TESTER COMMENTS
------------------------------
Additional comments from tester:
this report is from an automated smoke testing program
and was not reviewed by a human for accuracy
------------------------------
PROGRAM OUTPUT
------------------------------
Output from '/usr/bin/make test':
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/bin/perl Build --makefile_env_macros 1 test
DBI connect('database=bioseqdb;host=127.0.0.1;port=3306','root',...) failed: Can't connect to MySQL server on '127.0.0.1' (111) at /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm line 265.
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: t/01dbadaptor.t:25
-----------------------------------------------------------
# Looks like your test exited with 255 just after 8.
t/01dbadaptor.t ...
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 15/23 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::mysql::SpeciesAdaptorDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/mysql/SpeciesAdaptorDriver.pm:220
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/02species.t:29
-----------------------------------------------------------
# Looks like your test exited with 255 just after 7.
t/02species.t .....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 60/67 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:264
STACK: Bio::DB::Persistent::PersistentObject::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:284
STACK: t/03simpleseq.t:28
-----------------------------------------------------------
# Looks like your test exited with 255 just after 8.
t/03simpleseq.t ...
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 62/70 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/04swiss.t:28
-----------------------------------------------------------
# Looks like your test exited with 255 just after 8.
t/04swiss.t .......
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 47/55 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/05seqfeature.t:42
-----------------------------------------------------------
# Looks like your test exited with 255 just after 6.
t/05seqfeature.t ..
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 46/52 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/06comment.t:25
-----------------------------------------------------------
# Looks like your test exited with 255 just after 5.
t/06comment.t .....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 9/14 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:264
STACK: Bio::DB::Persistent::PersistentObject::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:284
STACK: t/07dblink.t:23
-----------------------------------------------------------
# Looks like your test exited with 255 just after 5.
t/07dblink.t ......
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 16/21 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:264
STACK: Bio::DB::Persistent::PersistentObject::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:284
STACK: t/08genbank.t:30
-----------------------------------------------------------
# Looks like your test exited with 255 just after 5.
t/08genbank.t .....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 18/23 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/09fuzzy2.t:28
-----------------------------------------------------------
# Looks like your test exited with 255 just after 4.
t/09fuzzy2.t ......
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 19/23 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:264
STACK: Bio::DB::Persistent::PersistentObject::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:284
STACK: t/10ensembl.t:26
-----------------------------------------------------------
# Looks like your test exited with 255 just after 5.
t/10ensembl.t .....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 13/18 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/11locuslink.t:30
-----------------------------------------------------------
# Looks like your test exited with 255 just after 7.
t/11locuslink.t ...
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 106/113 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/12ontology.t:35
-----------------------------------------------------------
# Looks like your test exited with 255 just after 6.
t/12ontology.t ....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 734/740 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/13remove.t:29
-----------------------------------------------------------
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: t/13remove.t:121
-----------------------------------------------------------
# Looks like your test exited with 255 just after 3.
t/13remove.t ......
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 58/61 subtests
t/14query.t ....... ok
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: t/15cluster.t:28
-----------------------------------------------------------
# Looks like your test exited with 255 just after 7.
t/15cluster.t .....
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 155/162 subtests
------------- EXCEPTION: Bio::Root::Exception -------------
MSG: failed to open connection: Can't connect to MySQL server on '127.0.0.1' (111)
STACK: Error::throw
STACK: Bio::Root::Root::throw /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/Bio/Root/Root.pm:447
STACK: Bio::DB::DBI::base::new_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:267
STACK: Bio::DB::DBI::base::get_connection /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/DBI/base.pm:228
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::dbh /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:1498
STACK: Bio::DB::BioSQL::BaseDriver::prepare_findbyuk_sth /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BaseDriver.pm:528
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::_find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:945
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::find_by_unique_key /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:873
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:195
STACK: Bio::DB::Persistent::PersistentObject::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:257
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::create /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:182
STACK: Bio::DB::BioSQL::BasePersistenceAdaptor::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/BioSQL/BasePersistenceAdaptor.pm:264
STACK: Bio::DB::Persistent::PersistentObject::store /tmp/loop_over_bdir-19243-9djnpq/BioPerl-DB-1.006900-0/blib/lib/Bio/DB/Persistent/PersistentObject.pm:284
STACK: t/16obda.t:36
-----------------------------------------------------------
# Looks like your test exited with 255 just after 6.
t/16obda.t ........
Dubious, test returned 255 (wstat 65280, 0xff00)
Failed 10/16 subtests
Test Summary Report
-------------------
t/01dbadaptor.t (Wstat: 65280 Tests: 8 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 23 tests but ran 8.
t/02species.t (Wstat: 65280 Tests: 7 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 67 tests but ran 7.
t/03simpleseq.t (Wstat: 65280 Tests: 8 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 70 tests but ran 8.
t/04swiss.t (Wstat: 65280 Tests: 8 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 55 tests but ran 8.
t/05seqfeature.t (Wstat: 65280 Tests: 6 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 52 tests but ran 6.
t/06comment.t (Wstat: 65280 Tests: 5 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 14 tests but ran 5.
t/07dblink.t (Wstat: 65280 Tests: 5 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 21 tests but ran 5.
t/08genbank.t (Wstat: 65280 Tests: 5 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 23 tests but ran 5.
t/09fuzzy2.t (Wstat: 65280 Tests: 4 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 23 tests but ran 4.
t/10ensembl.t (Wstat: 65280 Tests: 5 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 18 tests but ran 5.
t/11locuslink.t (Wstat: 65280 Tests: 7 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 113 tests but ran 7.
t/12ontology.t (Wstat: 65280 Tests: 6 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 740 tests but ran 6.
t/13remove.t (Wstat: 65280 Tests: 3 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 61 tests but ran 3.
t/15cluster.t (Wstat: 65280 Tests: 7 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 162 tests but ran 7.
t/16obda.t (Wstat: 65280 Tests: 6 Failed: 0)
Non-zero exit status: 255
Parse errors: Bad plan. You planned 16 tests but ran 6.
Files=16, Tests=113, 13 wallclock secs ( 0.05 usr 0.12 sys + 4.15 cusr 0.85 csys = 5.17 CPU)
Result: FAIL
Failed 15/16 test programs. 0/113 subtests failed.
Makefile:103: recipe for target 'test' failed
make: *** [test] Error 255
------------------------------
PREREQUISITES
------------------------------
Prerequisite modules loaded:
requires:
Module Need Have
------------------ -------- --------
Bio::Root::Version 1.006900 1.007001
DBI 0 1.636
perl v5.6.1 5.022002
configure_requires:
Module Need Have
------------------ -------- --------
Module::Build 0.38 0.4220
------------------------------
ENVIRONMENT AND OTHER CONTEXT
------------------------------
Environment variables:
AUTOMATED_TESTING = 1
LANG = en_US.UTF-8
PATH = /home/sand/bin:/usr/local/bin:/usr/bin:/bin:/usr/games:/usr/local/perl/bin:/usr/X11/bin:/sbin:/usr/sbin
PERL5LIB =
PERL5OPT =
PERL5_CPANPLUS_IS_RUNNING = 19245
PERL5_CPAN_IS_RUNNING = 19245
PERL_CANARY_STABILITY_NOPROMPT = 1
PERL_MM_USE_DEFAULT = 1
PERL_USE_UNSAFE_INC = 1
SHELL = /usr/bin/zsh
TERM = screen
Perl special variables (and OS-specific diagnostics, for MSWin32):
$^X = /home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/bin/perl
$UID/$EUID = 1005 / 1005
$GID = 1005 1005
$EGID = 1005 1005
Perl module toolchain versions installed:
Module Have
------------------- --------
CPAN 2.17
CPAN::Meta 2.150010
Cwd 3.62
ExtUtils::CBuilder 0.280224
ExtUtils::Command 7.24
ExtUtils::Install 2.04
ExtUtils::MakeMaker 7.24
ExtUtils::Manifest 1.70
ExtUtils::ParseXS 3.28
File::Spec 3.62
JSON 2.90
JSON::PP 2.27300
Module::Build 0.4220
Module::Signature 0.81
Parse::CPAN::Meta 2.150010
Test::Harness 3.39
Test::More 1.302081
YAML 1.23
YAML::Syck 1.29
version 0.9909
--
Summary of my perl5 (revision 5 version 22 subversion 2) configuration:
Derived from: 9cbffb38735712e3a34e6f537892b6ef06fb815f
Platform:
osname=linux, osvers=4.9.0-2-amd64, archname=x86_64-linux-ld
uname='linux k93msid 4.9.0-2-amd64 #1 smp debian 4.9.13-1 (2017-02-27) x86_64 gnulinux '
config_args='-Dprefix=/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c -Dmyhostname=k93msid -Dinstallusrbinperl=n -Uversiononly -Dusedevel -des -Ui_db -Dlibswanted=cl pthread socket inet nsl gdbm dbm malloc dl ld sun m crypt sec util c cposix posix ucb BSD gdbm_compat -Uuseithreads -Duselongdouble -DDEBUGGING=-g'
hint=recommended, useposix=true, d_sigaction=define
useithreads=undef, usemultiplicity=undef
use64bitint=define, use64bitall=define, uselongdouble=define
usemymalloc=n, bincompat5005=undef
Compiler:
cc='cc', ccflags ='-fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include -D_LARGEFILE_SOURCE -D_FILE_OFFSET_BITS=64',
optimize='-O2 -g',
cppflags='-fwrapv -fno-strict-aliasing -pipe -fstack-protector-strong -I/usr/local/include'
ccversion='', gccversion='6.3.0 20170316', gccosandvers=''
intsize=4, longsize=8, ptrsize=8, doublesize=8, byteorder=12345678, doublekind=3
d_longlong=define, longlongsize=8, d_longdbl=define, longdblsize=16, longdblkind=3
ivtype='long', ivsize=8, nvtype='long double', nvsize=16, Off_t='off_t', lseeksize=8
alignbytes=16, prototype=define
Linker and Libraries:
ld='cc', ldflags =' -fstack-protector-strong -L/usr/local/lib'
libpth=/usr/local/lib /usr/lib/gcc/x86_64-linux-gnu/6/include-fixed /usr/include/x86_64-linux-gnu /usr/lib /lib/x86_64-linux-gnu /lib/../lib /usr/lib/x86_64-linux-gnu /usr/lib/../lib /lib
libs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
perllibs=-lpthread -lnsl -ldl -lm -lcrypt -lutil -lc
libc=libc-2.24.so, so=so, useshrplib=false, libperl=libperl.a
gnulibc_version='2.24'
Dynamic Linking:
dlsrc=dl_dlopen.xs, dlext=so, d_dlsymun=undef, ccdlflags='-Wl,-E'
cccdlflags='-fPIC', lddlflags='-shared -O2 -g -L/usr/local/lib -fstack-protector-strong'
Characteristics of this binary (from libperl):
Compile-time options: HAS_TIMES PERLIO_LAYERS PERL_DONT_CREATE_GVSV
PERL_HASH_FUNC_ONE_AT_A_TIME_HARD PERL_MALLOC_WRAP
PERL_NEW_COPY_ON_WRITE PERL_PRESERVE_IVUV
PERL_USE_DEVEL USE_64_BIT_ALL USE_64_BIT_INT
USE_LARGE_FILES USE_LOCALE USE_LOCALE_COLLATE
USE_LOCALE_CTYPE USE_LOCALE_NUMERIC USE_LOCALE_TIME
USE_LONG_DOUBLE USE_PERLIO USE_PERL_ATOF
Locally applied patches:
uncommitted-changes
Built under linux
Compiled at Mar 19 2017 09:33:40
%ENV:
PERL5LIB=""
PERL5OPT=""
PERL5_CPANPLUS_IS_RUNNING="19245"
PERL5_CPAN_IS_RUNNING="19245"
PERL_CANARY_STABILITY_NOPROMPT="1"
PERL_MM_USE_DEFAULT="1"
PERL_USE_UNSAFE_INC="1"
@INC:
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2/x86_64-linux-ld
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/site_perl/5.22.2
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/5.22.2/x86_64-linux-ld
/home/sand/src/perl/repoperls/installed-perls/host/k93msid/v5.22.2/2d7c/lib/5.22.2
.