| 2014-05-15 |
Chris Fields | Add a potential fix for AMPHORA2 newick support; this...
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commit | commitdiff | tree |
| 2014-04-21 |
Chris Fields | changes all issue tracking in preparation for switch...
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commit | commitdiff | tree |
| 2014-03-29 |
Dave Messina | allowing lines with species label ($seq) without $rest...
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commit | commitdiff | tree |
| 2014-03-29 |
Chris Fields | spellink
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commit | commitdiff | tree |
| 2013-12-18 |
Chris Fields | skip Bio::ASN1::EntrezGene check (circ dependency fixed...
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commit | commitdiff | tree |
| 2013-12-18 |
Chris Fields | [skip ci] add some changes
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commit | commitdiff | tree |
| 2013-11-26 |
Chris Fields | Revert "test failing build"
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commit | commitdiff | tree |
| 2013-11-26 |
Chris Fields | test failing build
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commit | commitdiff | tree |
| 2013-11-26 |
Chris Fields | test Bio::ASN1::EntrezGene
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commit | commitdiff | tree |
| 2013-11-26 |
Chris Fields | see if we can get travis-ci notifications working
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commit | commitdiff | tree |
| 2013-10-17 |
Chris Fields | fix issue with seq_id when set to 0, patch courtesy...
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commit | commitdiff | tree |
| 2013-10-14 |
Chris Fields | add support for a stricter standard codon table, for...
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| 2013-10-14 |
Chris Fields | add some additional comments
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| 2013-10-06 |
Chris Fields | fix NCBIHelper bug, vars => ours
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| 2013-10-06 |
Chris Fields | remove and refactor genbank CONTIG code, address part...
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commit | commitdiff | tree |
| 2013-10-05 |
Chris Fields | clean up code
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commit | commitdiff | tree |
| 2013-10-05 |
Chris Fields | add test case for GenBank tests for bug #3448
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| 2013-09-16 |
Chris Fields | change eutil URL
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commit | commitdiff | tree |
| 2013-09-14 |
Chris Fields | update Changes
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commit | commitdiff | tree |
| 2013-09-12 |
Chris Fields | chmod of Build.PL to not be exe
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commit | commitdiff | tree |
| 2013-09-12 |
Chris Fields | update Changes
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commit | commitdiff | tree |
| 2013-09-12 |
Chris Fields | some ambiguity issues with this method call for some...
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commit | commitdiff | tree |
| 2013-09-10 |
Chris Fields | skip tests if the cloning class used happens to be...
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commit | commitdiff | tree |
| 2013-09-09 |
Chris Fields | Don't compare floats directly; make range of comparisons...
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commit | commitdiff | tree |
| 2013-09-07 |
Chris Fields | remove multi-declaration warning
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commit | commitdiff | tree |
| 2013-09-07 |
Chris Fields | fix skip miscounts
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commit | commitdiff | tree |
| 2013-09-07 |
Chris Fields | remove Bio::ASN1::EntrezGene from tests, this still...
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commit | commitdiff | tree |
| 2013-09-04 |
Chris Fields | skip tests if Bio::DB::Sam is present but samtools...
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commit | commitdiff | tree |
| 2013-09-03 |
Chris Fields | some more README tweaks
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commit | commitdiff | tree |
| 2013-09-03 |
Chris Fields | a few mroe markdown bits
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commit | commitdiff | tree |
| 2013-09-03 |
Chris Fields | create README.md file
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | add back perl versions
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | remove branch from testing
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | Merge branch 'topic/travis-scripts'
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | another fix (related ID)
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | fix remote DB test
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | move ASN1 back to .travis.yml
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | try getting Bio::ASN1 tests going again
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | missing Bio::Root::Build (now in Bio-Root), adding...
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | [skip ci] redirect all output to tail
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | clean up and add a few install msgs for travis-ci log...
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | add local dir to PERL5LIB
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commit | commitdiff | tree |
| 2013-08-13 |
Chris Fields | fix braino
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commit | commitdiff | tree |
| 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 |
