| 2013-08-13 |
Chris Fields | add circular dep installs to script (and rename script)
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | add comment on builds, but Bio::DB::Sam works for testing...
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | fix ordering of installs
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | turn on verbose mode; convert samtools to use -fPIC
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | skip all but latest perl (cut down on jobs), and change...
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | do some debugging, Bio::DB::Sam can't find the libs
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | samtools must be ready prior to install section
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | test Bio::DB::Sam install
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | add branch to travis-ci
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | add travis test script
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | [no ci] remove before_scripts section, will rework...
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | bah, add back Bio::Root::Root
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | remove Bio::DB::Sam for now, will move testing to a...
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | try moving to before_install section, git commands...
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | retest samtools (may be bad git path)
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | try a git checkout of the branch instead
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | test a samtools install from github tarball
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | test out samtools .deb instead; if this works, maybe...
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | add comment on Bio::ASN1::EntrezGene fussiness
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | see if Bio::DB::Sam package will work for tests
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | add bit on hash randomization and a few extras
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commit | commitdiff | tree |
| 2013-08-12 |
Chris Fields | tweak TODO message
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commit | commitdiff | tree |
| 2013-08-11 |
Chris Fields | hash randomization problem when mixing args with and...
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commit | commitdiff | tree |
| 2013-08-11 |
Chris Fields | it does not make sense to warn about a requirement...
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commit | commitdiff | tree |
| 2013-08-10 |
Chris Fields | add TODO for this one, bug seems to affect position...
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commit | commitdiff | tree |
| 2013-08-10 |
Chris Fields | sort the returned values for test purposes; order of...
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commit | commitdiff | tree |
| 2013-08-10 |
Chris Fields | add bug #
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commit | commitdiff | tree |
| 2013-08-10 |
Chris Fields | TODO some of the Assembly tests breaking from hash...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | fix for hash randomization bug in Bio::Map for perl...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'master' of git://github.com/fschwach...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | move hard-coded FT line length to a global
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'topic/pull_request47_adsj'
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'master' of git://github.com/adsj/bioperl...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge pull request #60 from MattOates/master
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'bugfix-exonerate' of git://github.com...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'master' of git://github.com/viklund/bioperl...
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | fix POD syntax
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commit | commitdiff | tree |
| 2013-07-14 |
Chris Fields | remove comment
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | try out EntrezGene again
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | Bio::SF::Annotated is deprecated
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | comment out FeatureIO, let Annotated tests fail until...
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | Bio::SeqFeature::Annotated is dead
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | add FeatureIO for stupid hidden SF::Annotated dependency...
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | add v1_cherry branch now that github hack works
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | remove EntrezGene for now (was installing BioPerl from...
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | hard-code master branch version (this will eventually...
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | remove redundant dependency
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commit | commitdiff | tree |
| 2013-07-12 |
Chris Fields | see if perl 5.18 testing is set up, seeing perl version...
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commit | commitdiff | tree |
| 2013-05-21 |
Chris Fields | update tests for perl 5.18
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commit | commitdiff | tree |
| 2013-02-20 |
Chris Fields | Merge branch 'master' of github.com:bioperl/bioperl...
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commit | commitdiff | tree |
| 2013-02-20 |
Paul Cantalupo | removing searchio-writer-bsmlresultwriter files
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commit | commitdiff | tree |
| 2013-02-20 |
Paul Cantalupo | removing searchio-blastxml files
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commit | commitdiff | tree |
| 2013-02-20 |
Chris Fields | add test and TODO for Issue #3416
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commit | commitdiff | tree |
| 2013-02-20 |
Chris Fields | accession no longer valid, using updated one
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | squash another warning from Graph module oddities
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | Merge branch 'v1'
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | fix problems with remote data changes
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | LOCUS IDs no longer work, bad for swissprot-like IDs...
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | fix ID example
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | MUSIGHBA1 no longer works as a primary ID, LOCUS apparently...
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | bulletproof test against remote data changes
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | squash warning
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | squash warning
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | HTML table parsing requires UTF8 decoding
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | Graph::Directed is giving warnings when using 'require...
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | squash warning
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | Merge branch 'v1'
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | add v1 branch for CI
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commit | commitdiff | tree |
| 2013-02-06 |
Chris Fields | fix for bug #3410
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commit | commitdiff | tree |
| 2012-11-26 |
Chris Fields | allow additional nuc IUPAC when guessing, this was...
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commit | commitdiff | tree |
| 2012-11-04 |
Chris Fields | BLAST XML not allowing custom search handlers, fix...
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commit | commitdiff | tree |
| 2012-10-03 |
Chris Fields | fix deprecated usage warnings for perl 5.16
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commit | commitdiff | tree |
| 2012-10-03 |
Chris Fields | add Bio::ASN1::EntrezGene
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commit | commitdiff | tree |
| 2012-10-03 |
Chris Fields | comment out vestigial commit(), tests now pass
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commit | commitdiff | tree |
| 2012-10-02 |
Chris Fields | Should run check if SQLite or Pg drivers present
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commit | commitdiff | tree |
| 2012-10-02 |
Chris Fields | Only commit if AutoCommit is off
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commit | commitdiff | tree |
| 2012-10-02 |
Chris Fields | clean up last commit a little
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commit | commitdiff | tree |
| 2012-10-02 |
Chris Fields | returning undef to an array still creates an array...
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commit | commitdiff | tree |
| 2012-10-02 |
Chris Fields | mysql => Pg
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commit | commitdiff | tree |
| 2012-10-01 |
Chris Fields | um, when did IndexedBase come about? Fix to address...
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commit | commitdiff | tree |
| 2012-10-01 |
Chris Fields | fix text fail if HTML::TableExtract isn't present
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commit | commitdiff | tree |
| 2012-10-01 |
Chris Fields | squash a couple of warnings with more recent versions...
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commit | commitdiff | tree |
| 2012-08-25 |
Chris Fields | Revert "Fix for correctly parsing phylip format with...
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commit | commitdiff | tree |
| 2012-08-24 |
Chris Fields | Merge pull request #39 from daisieh/bug3331
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commit | commitdiff | tree |
| 2012-08-24 |
Chris Fields | Merge pull request #40 from cwittmer/master
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commit | commitdiff | tree |
| 2012-07-27 |
Chris Fields | test Bio::Phylo and Bio::ASN1::EntrezGene deps
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commit | commitdiff | tree |
| 2012-07-27 |
Chris Fields | add whitelist, switch to master (this disappeared somewhere...
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commit | commitdiff | tree |
| 2012-07-27 |
Chris Fields | test libxml dep
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commit | commitdiff | tree |
| 2012-07-27 |
Chris Fields | consolidate cpanm params
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commit | commitdiff | tree |
| 2012-07-26 |
Chris Fields | test GD again
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commit | commitdiff | tree |
| 2012-07-26 |
Chris Fields | older version of peterjc's .travis.yml, see if this...
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commit | commitdiff | tree |
| 2012-07-26 |
Chris Fields | fix some yaml
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commit | commitdiff | tree |
| 2012-07-26 |
Chris Fields | merge Peter's changes in
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commit | commitdiff | tree |
| 2012-07-25 |
Chris Fields | test travis
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commit | commitdiff | tree |
| 2012-07-25 |
Chris Fields | add a comment
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commit | commitdiff | tree |
| 2012-07-09 |
Chris Fields | Merge branch 'topic/eutils-migration'
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commit | commitdiff | tree |
| 2012-05-27 |
Chris Fields | bad option fixed, patch courtesy Peter van Heusden
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commit | commitdiff | tree |
| 2012-05-26 |
Chris Fields | Merge pull request #34 from TristanLefebure/codonbs
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commit | commitdiff | tree |
| 2012-05-10 |
Chris Fields | change \W+ tp \s+, allows gaps (per Tim White)
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commit | commitdiff | tree |
| 2012-04-10 |
Chris Fields | Roy's patches for Bio::SeqUtils, addresses bug #3339
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commit | commitdiff | tree |
