| 2011-05-19 |
Chris Fields | add a few changes
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commit | commitdiff | tree |
| 2011-05-19 |
Chris Fields | uncomment versioning code, which sets the version in...
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commit | commitdiff | tree |
| 2011-05-10 |
Chris Fields | fix spelling errors, fixes #3228
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commit | commitdiff | tree |
| 2011-05-09 |
Chris Fields | strip out -w flag (see perllexwarn as to why setting...
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | deal with small change in # of contigs returned with...
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | see if we can make PAUSE skip indexing these modules
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | only allow defined data, otherwise nastiness may ensue
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | added suggested change by John Anderson (genehack)...
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | a few more updates
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | remove -w flag (windows, may follow suit with others)
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | add skips and a warning re: NeXML v0.9 support
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | more Changes
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | more deprecated code removal; squash test failing due...
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | XML::Parser::PerlSAX required for these tests
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | Use of qw(...) as parentheses is deprecated with perl...
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | update Changes
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commit | commitdiff | tree |
| 2011-05-04 |
Chris Fields | bump version
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commit | commitdiff | tree |
| 2011-04-19 |
Chris Fields | add some comments
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commit | commitdiff | tree |
| 2011-04-19 |
Chris Fields | NeXML problems also with Bio::AlignIO::nexml, refs...
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commit | commitdiff | tree |
| 2011-04-19 |
Chris Fields | fixes for missing DBI, gbxml reliance on XML::SAX,...
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commit | commitdiff | tree |
| 2011-04-19 |
Chris Fields | Bio::SeqIO::nexml doesn't work with NeXML v0.9 yet...
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commit | commitdiff | tree |
| 2011-04-18 |
Chris Fields | add updated file for NeXML tree parsing, refs #3207
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | finish Changes
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | we are grown-ups now, don't need a passthrough Makefile.PL
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | work on updates for release
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | don't run DB::Taxonomy test w/o XML::Twig
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | no need to print these out to a file, we just store...
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | no need to print out files, these are in the dist already
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | partly squash Assembly warnings
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | formatting again for warning
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | remove redundant tests per Dave Messina
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | add some spacing for warning
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | parameter missing actual argument
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | catch missing EntrezGene and warn re: circ dependency
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | MANIFEST is created dynamically, we leave MANIFEST...
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | add a few things to skip that are possibly created...
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | add back MANIFEST.SKIP; we have a few test files created...
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | Revert "remove MANIFEST/MANIFEST.SKIP (only need for...
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | typo
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | fix skip test count (off by 1)
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | Merge branch 'topic/bug_3196', fixes #3196 but needs...
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | Merge remote branch 'wkretzsch/master'
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | TODO failing test per bug #3204
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commit | commitdiff | tree |
| 2011-04-13 |
Chris Fields | fix typo
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | remove MANIFEST/MANIFEST.SKIP (only need for dist release)
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | continue the subtle dismantling of Bio::Root::Build...
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | some comments on the general state of things re: Bio...
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | * git rid of post-install step (see what I did there?)
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | mv netinstaller to bp_* and change docs accordingly
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | mv netinstall to utilities folder
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | squash local warnings
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | default to memory if the adaptor is SQLite
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | set up some specific cleanup steps for us
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commit | commitdiff | tree |
| 2011-04-12 |
Chris Fields | * Get basic tests and other Build.PL features working
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | dismantle a little more Bio::Root::Build, get it in...
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | make the test script check for OS, not leave it up...
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | fix typo; simplify, comment out prereq check methods...
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | Pull out the 'recommends' table and refactor to make...
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | upate MANIFEST
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commit | commitdiff | tree |
| 2011-04-11 |
Chris Fields | Remove process_metadata override, which is bitrotting...
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commit | commitdiff | tree |
| 2011-04-07 |
Chris Fields | enable fast loading with namespaces; empty tables were...
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commit | commitdiff | tree |
| 2011-04-07 |
Chris Fields | make sure short params don't conflict, make them explicit
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commit | commitdiff | tree |
| 2011-04-07 |
Chris Fields | comment out overzealous error checking, which caused...
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commit | commitdiff | tree |
| 2011-04-07 |
Chris Fields | fix test fail from bad file name
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commit | commitdiff | tree |
| 2011-04-06 |
Chris Fields | Allow falling back to any strigified Bio::AnnotationI...
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commit | commitdiff | tree |
| 2011-04-06 |
Chris Fields | * add tests that check trucated sequence length matches...
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commit | commitdiff | tree |
| 2011-04-06 |
Chris Fields | * 'use vars' -> our
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commit | commitdiff | tree |
| 2011-04-05 |
Chris Fields | moved functions to Bio::SearchIO so they can be used...
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | sizes() now allows for a Bio::Restriction::EnzymeI...
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | rework to optimize a bit, again for bug #3172
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | potential fix for bug #3172, but needs to be checked...
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | Revert "test hook again (anyone getting annoyed by...
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | test hook again (anyone getting annoyed by this yet?)
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | use residue count for calcs instead of length, fixes...
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | test hook
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | test hook
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | test hook, fingers crossed
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | add patch that fixes #3190, courtesy Ali Walsh
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commit | commitdiff | tree |
| 2011-03-31 |
Chris Fields | test hook again
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commit | commitdiff | tree |
| 2011-03-31 |
Chris Fields | test hook again
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commit | commitdiff | tree |
| 2011-03-31 |
Chris Fields | test post-receive again
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | retest hook to make sure it works, refs #3189
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | test post-receive hook, post-SSL
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | retest using https post-rec hook: refs #3181, @2.5
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | remove comment: refs #3181, @2.5
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | add tests: refs #3181
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | add tests for bug 3181
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commit | commitdiff | tree |
| 2011-03-29 |
Chris Fields | revert some changes from the global redmine conversion
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commit | commitdiff | tree |
| 2011-03-17 |
Chris Fields | Revert "volatile data broke test". Remote database...
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commit | commitdiff | tree |
| 2011-03-17 |
Chris Fields | update manifest
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | within_element works better
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | reduce warning message, was overly verbose and gave...
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | fix CUTG skipped test count
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | volatile data broke test
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | make exception messages match whether one has Error...
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | a bit more perl 5.12 warning squashing
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | use Test::Exception methods exported from Bio::Root...
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | squash XML::Writer issue, still get a warning though
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | use 'ace' as the default source, make sure that undef...
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commit | commitdiff | tree |
| 2011-03-13 |
Chris Fields | commented out accidentally uncommented code
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commit | commitdiff | tree |
