| 2015-01-31 |
Chris Fields | convert to markdown for consistency
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commit | commitdiff | tree |
| 2015-01-31 |
Chris Fields | convert to markdown for consistency
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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 |
| 2013-09-07 |
Chris Fields | fix skip miscounts
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commit | commitdiff | tree |
| 2013-09-02 |
Chris Fields | Merge branch 'topic/travis-scripts'
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commit | commitdiff | tree |
| 2013-08-09 |
Chris Fields | Merge branch 'master' of git://github.com/fschwach...
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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 |
| 2013-05-21 |
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 |
| 2013-02-19 |
Chris Fields | Merge branch 'v1'
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commit | commitdiff | tree |
| 2013-02-19 |
Chris Fields | Merge branch 'v1'
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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 |
| 2012-08-29 |
Chris Fields | Merge pull request #8 from daisieh/bug_3381_2
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commit | commitdiff | tree |
| 2012-08-29 |
Chris Fields | Merge pull request #6 from daisieh/bug_3380
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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 |
| 2012-07-26 |
Chris Fields | merge Peter's changes in
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commit | commitdiff | tree |
| 2012-07-09 |
Chris Fields | Merge branch 'topic/eutils-migration'
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commit | commitdiff | tree |
| 2012-05-26 |
Chris Fields | Merge pull request #34 from TristanLefebure/codonbs
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commit | commitdiff | tree |
| 2012-01-21 |
Chris Fields | Merge pull request #32 from fschwach/master
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commit | commitdiff | tree |
| 2012-01-13 |
Chris Fields | Merge pull request #31 from fschwach/master
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commit | commitdiff | tree |
| 2011-12-09 |
Chris Fields | Merge pull request #29 from wkretzsch/master
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commit | commitdiff | tree |
| 2011-12-09 |
Chris Fields | Merge branch 'master' of https://github.com/fgvieira...
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commit | commitdiff | tree |
| 2011-11-29 |
Chris Fields | Merge branch 'embl_write_id_line_fix'
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commit | commitdiff | tree |
| 2011-10-28 |
Chris Fields | Merge pull request #26 from fgvieira/master
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commit | commitdiff | tree |
| 2011-10-24 |
Chris Fields | Merge branch 'master' of github.com:bioperl/bioperl...
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commit | commitdiff | tree |
| 2011-09-29 |
Chris Fields | Merge branch 'master' of github.com:bioperl/bioperl...
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commit | commitdiff | tree |
| 2011-09-22 |
Chris Fields | Merge pull request #24 from carandraug/bp_genbank_ref_extractor
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commit | commitdiff | tree |
| 2011-09-20 |
Chris Fields | Merge pull request #3 from viklund/master
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commit | commitdiff | tree |
| 2011-07-26 |
Chris Fields | Merge pull request #19 from carandraug/script/extract_featur...
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commit | commitdiff | tree |
| 2011-07-25 |
Chris Fields | Merge pull request #18 from carandraug/script/perl...
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commit | commitdiff | tree |
| 2011-07-25 |
Chris Fields | Merge pull request #17 from carandraug/master
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commit | commitdiff | tree |
| 2011-07-06 |
Chris Fields | tested against phyml 2.4.4 and phyml 3.0 releases,...
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commit | commitdiff | tree |
| 2011-07-06 |
Chris Fields | updates for PhyML 3.0, patch courtesy Jessen Bredeson...
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commit | commitdiff | tree |
| 2011-07-06 |
Chris Fields | fix path to system perl, patch courtesy Charles Plessy...
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commit | commitdiff | tree |
| 2011-07-06 |
Chris Fields | speelink fixes, patch courtesy Charles Plessy, fixes...
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commit | commitdiff | tree |
| 2011-07-06 |
Chris Fields | add --install_scripts option for Build.PL, patch courtesy...
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commit | commitdiff | tree |
| 2011-06-29 |
Chris Fields | Merge pull request #2 from chadadavis/skip-na-tests
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commit | commitdiff | tree |
| 2011-06-20 |
Chris Fields | Merge pull request #16 from chadadavis/master
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commit | commitdiff | tree |
| 2011-06-02 |
Chris Fields | Merge pull request #15 from tupinek/master
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commit | commitdiff | tree |
| 2011-05-19 |
Chris Fields | this module requires Config::Any; skip these tests...
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commit | commitdiff | tree |
| 2011-05-19 |
Chris Fields | this module requires Config::Any; skip these tests...
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commit | commitdiff | tree |
| 2011-05-19 |
Chris Fields | don't call executable()
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commit | commitdiff | tree |
| 2011-05-10 |
Chris Fields | fix spelling errors, fixes #3228
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commit | commitdiff | tree |
| 2011-04-21 |
Chris Fields | skip # off
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commit | commitdiff | tree |
| 2011-04-21 |
Chris Fields | hack in a workaround for version(), which conflicts...
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commit | commitdiff | tree |
| 2011-04-21 |
Chris Fields | passthrough Makefile is deprecated; add BEDTools dependency
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commit | commitdiff | tree |
| 2011-04-21 |
Chris Fields | a few last additions
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | some more Changes
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | some initial Changes stuff, getting ready for a run...
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | add comment on the required BLAST+ version, refs #3213
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | get SABlast tests passing with v 2.2.24+ and up
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | fix hit count to go with database change, tests pass...
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | get BLAST+ tests to actually finish w/o a crash using...
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | BLAST+ tests passing so far, refs #3213
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commit | commitdiff | tree |
| 2011-04-20 |
Chris Fields | changes to deal with indexing of FASTA with dup ID...
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | get MAFFT working
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | latest samtools needs a sorted BAM for indexing
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commit | commitdiff | tree |
| 2011-04-14 |
Chris Fields | update for EMBOSS 6.2.0
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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 |
| 2011-04-04 |
Chris Fields | Revert "test hook from run (issue might be CGI params)"
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commit | commitdiff | tree |
| 2011-04-04 |
Chris Fields | test hook from run (issue might be CGI params)
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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 |
| 2010-11-09 |
Chris Fields | Merge branch 'topic/gjuggler_tree_fixes'
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commit | commitdiff | tree |
| 2010-11-08 |
Chris Fields | Merge branch 'master' of https://github.com/gjuggler...
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | simplify some bits, pass on query/target types to the...
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | remove cruft, gunge, and implement searchio()
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | allow other SearchIO formats and parameters (though...
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | tests for regions, require a .2bit database so only...
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | add an uppercase alias for db, tests pass
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commit | commitdiff | tree |
| 2010-11-05 |
Chris Fields | initial checkin of revamped Blat wrapper
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commit | commitdiff | tree |
| 2010-08-17 |
Chris Fields | Merge branch 'circular'
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commit | commitdiff | tree |
| 2010-08-05 |
Chris Fields | [bug 2987] remove warning (patch courtesy Adam Witney
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commit | commitdiff | tree |
| 2010-07-29 |
Robert Buels | strip keyword substitution from perl modules
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commit | commitdiff | tree |
| 2010-07-23 |
Chris Fields | [RT 58464] patching to allow file names with spaces
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commit | commitdiff | tree |
| 2010-07-23 |
Chris Fields | Revert "add dots param"
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commit | commitdiff | tree |
| 2010-07-23 |
Chris Fields | add dots param
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commit | commitdiff | tree |
| 2010-07-23 |
Chris Fields | [RT 58464] patching to allow file names with spaces
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commit | commitdiff | tree |
| 2010-07-23 |
Chris Fields | Merge branch 'topic/cjfields_interpro_get_dbxref'
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commit | commitdiff | tree |
| 2010-07-05 |
Chris Fields | small fixes, but the previous code does work when setting...
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commit | commitdiff | tree |
| 2010-07-04 |
Chris Fields | spelling
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commit | commitdiff | tree |
| 2010-07-03 |
Chris Fields | Merge branch 'topic/species_proxy'
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commit | commitdiff | tree |
| 2010-07-01 |
Chris Fields | move tests over to tempfile use (tmpdir not being cleaned up)
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commit | commitdiff | tree |
| 2010-07-01 |
Chris Fields | move to tempfiles for cleanup
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commit | commitdiff | tree |
| 2010-07-01 |
Chris Fields | algorithm can be SSEARCH as well; use test_output_file...
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commit | commitdiff | tree |
| 2010-07-01 |
Chris Fields | contigs off with Ubuntu packaged MAQ
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | no_sequences -> num_sequences
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | some tweaks to get rid of warnings
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | more robust call to ulimit
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | is(), not ok()
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | skip if version greater than 1.2 (old primer3 code)
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | add version() (backport from primer3redux)
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | align left
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commit | commitdiff | tree |
| 2010-06-30 |
Chris Fields | fix odd verbosity-dependent bug with EMBOSS tests
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commit | commitdiff | tree |
