| 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 |
| 2011-03-13 |
Chris Fields | squash warning
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commit | commitdiff | tree |
| 2011-03-12 |
Chris Fields | only add tags if the value is defined
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commit | commitdiff | tree |
| 2011-03-12 |
Chris Fields | please use a source tag
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commit | commitdiff | tree |
| 2011-03-11 |
Chris Fields | test redmine post-receive hook
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commit | commitdiff | tree |
| 2011-03-11 |
Chris Fields | test redmine
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commit | commitdiff | tree |
| 2011-03-11 |
Chris Fields | not using subversion
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commit | commitdiff | tree |
| 2011-03-04 |
Chris Fields | add tests and a few other fixes to account for cut...
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commit | commitdiff | tree |
| 2011-03-04 |
Chris Fields | fix for bad condition check, via Elia Stupka
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commit | commitdiff | tree |
| 2011-02-27 |
Chris Fields | -tag and -attribute are synonyms with SeqFeatureI
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commit | commitdiff | tree |
| 2011-02-23 |
Chris Fields | actually have an error message
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commit | commitdiff | tree |
| 2011-02-14 |
Chris Fields | Merge branch 'master' of github.com:bioperl/bioperl...
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commit | commitdiff | tree |
| 2011-02-14 |
Chris Fields | checked each line for definedness, not falseness
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | translate() changes
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | consolidate tests, fix exception string
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | correct test count
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | can have a -string option as well
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | future-proof test
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | [bug 3165] quick fix for fastq indexing, this parser...
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | squash minor warning
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | [bug RT#58492] small synopsis fix, update->store
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | [bug RT#54590] add some docs on the -blasttype parameter
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commit | commitdiff | tree |
| 2011-01-31 |
Chris Fields | RT#47704: recursively remove code refs for any SeqFeatureI
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commit | commitdiff | tree |
| 2011-01-18 |
Chris Fields | rectify a conflict in behavior between PrimarySeq:...
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commit | commitdiff | tree |
| 2011-01-11 |
Chris Fields | Merge branch 'master', remote branch 'origin'
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commit | commitdiff | tree |
| 2011-01-03 |
Chris Fields | tweak SeqIO to catch odd file types, add generic SeqIO...
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commit | commitdiff | tree |
| 2010-12-23 |
Chris Fields | deal with OX lines and TaxIDs (patch courtesy Jacob...
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commit | commitdiff | tree |
| 2010-11-20 |
Chris Fields | add length so this matches to_string documentation...
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commit | commitdiff | tree |
| 2010-11-11 |
Chris Fields | add Error as a recommends, but indicate it as very...
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commit | commitdiff | tree |
| 2010-11-11 |
Chris Fields | fix test that relied on the highly optional Error.pm
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commit | commitdiff | tree |
| 2010-11-10 |
Chris Fields | use throw() as a class method, since next_token() is...
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commit | commitdiff | tree |
| 2010-11-09 |
Chris Fields | rm $Id
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commit | commitdiff | tree |
| 2010-11-09 |
Chris Fields | fixes to deal with changes in sort order of nodes due...
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commit | commitdiff | tree |
