| 2008-02-12 |
cjfields | missing getter/setter added
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commit | commitdiff | tree |
| 2008-02-12 |
cjfields | bug 2440
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commit | commitdiff | tree |
| 2008-02-11 |
cjfields | remove comment (make sure tempfile/tempdirs stored...
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commit | commitdiff | tree |
| 2008-02-11 |
cjfields | Fix for bug 2413. Shouldn't we delegate all IO-related...
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commit | commitdiff | tree |
| 2008-02-10 |
cjfields | test commit msgs from /usr/local/bin
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commit | commitdiff | tree |
| 2008-02-10 |
cjfields | checking svn post commits to list
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commit | commitdiff | tree |
| 2008-02-07 |
cjfields | bug 2445: clean up hit table regex to skip N (Bernd...
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | changed URL
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | handles Bio::Taxon as well as Bio::Species now (might...
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | * small rnamotif fix
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | bug 2444 (HSP::significance returning wrong value)
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | bug 2438; 'X' no longer completely ambiguous
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | bug 2415
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commit | commitdiff | tree |
| 2008-02-05 |
cjfields | bug 2442
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commit | commitdiff | tree |
| 2008-02-04 |
cjfields | Fixed bits/raw_score issue related to GenericHit changes...
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commit | commitdiff | tree |
| 2008-01-31 |
cjfields | bug 2436; add option for 'mismatch' (no match w/o gaps)
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commit | commitdiff | tree |
| 2008-01-30 |
cjfields | Add simple method to retrieve parameter settings
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commit | commitdiff | tree |
| 2008-01-25 |
cjfields | Returned value from EntrezGene is different
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commit | commitdiff | tree |
| 2008-01-24 |
cjfields | Stefan's fix for entrezgene which includes a fix for...
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commit | commitdiff | tree |
| 2008-01-22 |
cjfields | revert last commit; problem more serious than initially...
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commit | commitdiff | tree |
| 2008-01-21 |
cjfields | get rid of annoying 'pseudohashes' error; tests now...
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commit | commitdiff | tree |
| 2008-01-21 |
cjfields | Use db settings for both BioDBGFF and BioDBSeqFeature_mysql...
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | remove format option for EMBL just in case...
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | bug 2433
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | Starter cross_match tests and sample data. Needs...
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | Tentative fix for bug 2427
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | bug 2423
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commit | commitdiff | tree |
| 2008-01-17 |
cjfields | bug 2431
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commit | commitdiff | tree |
| 2008-01-15 |
cjfields | Bug 2426
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commit | commitdiff | tree |
| 2008-01-14 |
cjfields | test post-commit after fsfs transfer (2nd try)
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commit | commitdiff | tree |
| 2008-01-14 |
cjfields | test commits after fsfs transfer
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commit | commitdiff | tree |
| 2008-01-07 |
cjfields | Test
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commit | commitdiff | tree |
| 2007-12-06 |
cjfields | small fix for VERSIONing issue, POD fixes
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commit | commitdiff | tree |
| 2007-11-29 |
cjfields | bug 2333; first pass at PSIBLAST XML parsing
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commit | commitdiff | tree |
| 2007-11-29 |
cjfields | Match HSP, not hit table
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commit | commitdiff | tree |
| 2007-11-29 |
cjfields | more memory-friendly
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commit | commitdiff | tree |
| 2007-11-28 |
cjfields | WUBLAST signif gets pvalue, NCBI BLAST signif gets...
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commit | commitdiff | tree |
| 2007-11-28 |
cjfields | Several fixes
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commit | commitdiff | tree |
| 2007-11-25 |
cjfields | bug 2329
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commit | commitdiff | tree |
| 2007-11-25 |
cjfields | bug 2329, example script to generate a SVG chromatogram
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commit | commitdiff | tree |
| 2007-11-25 |
cjfields | bug 2329
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commit | commitdiff | tree |
| 2007-11-25 |
cjfields | get rid of 'Use of uninitialized value in concatenation...
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commit | commitdiff | tree |
| 2007-11-25 |
cjfields | Related to Albert's fix
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commit | commitdiff | tree |
| 2007-11-21 |
cjfields | bug 2399
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commit | commitdiff | tree |
| 2007-11-21 |
cjfields | a bit more for bug 2391
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commit | commitdiff | tree |
| 2007-11-21 |
cjfields | bug 2391
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commit | commitdiff | tree |
| 2007-11-21 |
cjfields | bug 2406
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commit | commitdiff | tree |
| 2007-11-19 |
cjfields | bug 2392
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commit | commitdiff | tree |
| 2007-11-19 |
cjfields | bug 2399
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commit | commitdiff | tree |
| 2007-11-16 |
cjfields | fix fuzzy location bug
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commit | commitdiff | tree |
| 2007-11-13 |
cjfields | Now catches primary GI
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commit | commitdiff | tree |
| 2007-11-10 |
cjfields | Fix for mysql adaptor to recursively remove child features...
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commit | commitdiff | tree |
| 2007-11-08 |
cjfields | fix arg list not being passed along if GFF3 is intended
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commit | commitdiff | tree |
| 2007-11-08 |
cjfields | Allow phase to be set
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commit | commitdiff | tree |
| 2007-11-08 |
cjfields | * alias delete_features (for GBrowse plugins)
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commit | commitdiff | tree |
| 2007-10-23 |
cjfields | error in test script
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commit | commitdiff | tree |
| 2007-10-23 |
cjfields | bug 2385
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commit | commitdiff | tree |
| 2007-10-23 |
cjfields | bug 2368
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commit | commitdiff | tree |
| 2007-10-23 |
cjfields | bug 2367
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commit | commitdiff | tree |
| 2007-10-18 |
cjfields | some tweaks
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commit | commitdiff | tree |
| 2007-10-15 |
cjfields | bug 2332
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commit | commitdiff | tree |
| 2007-10-09 |
cjfields | start must always be < end; strand determines directionality
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commit | commitdiff | tree |
| 2007-10-08 |
cjfields | capture display_name, score data for Glimmer3 predict...
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commit | commitdiff | tree |
| 2007-10-05 |
cjfields | typo
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commit | commitdiff | tree |
| 2007-10-05 |
cjfields | * bug fix from Jeffrey Barrick for cases where empty...
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commit | commitdiff | tree |
| 2007-10-04 |
cjfields | always use table type to MyISAM for FULLTEXT indexing
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commit | commitdiff | tree |
| 2007-09-28 |
cjfields | don't use Carp, use $self->warn()
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commit | commitdiff | tree |
| 2007-09-28 |
cjfields | fix bug with multiple ID, DE, AC lines
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | * add line_length parameter for stockholm to print...
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | Add meta data to alignments if present
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | remove nonexistent exported sub
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | minor change to prevent scripts from dying
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | Add obo to registry
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commit | commitdiff | tree |
| 2007-09-27 |
cjfields | Switch to using SO and OBO
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commit | commitdiff | tree |
| 2007-09-25 |
cjfields | Rollback last commit, don't want to change lca node...
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commit | commitdiff | tree |
| 2007-09-25 |
cjfields | bug 2219
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commit | commitdiff | tree |
| 2007-09-24 |
cjfields | POD fix
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commit | commitdiff | tree |
| 2007-09-17 |
cjfields | remove overloading exceptions (more trouble than they...
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commit | commitdiff | tree |
| 2007-09-14 |
cjfields | mail list patch from Jay Hannah
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commit | commitdiff | tree |
| 2007-09-14 |
cjfields | bug 2352
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commit | commitdiff | tree |
| 2007-09-11 |
cjfields | bug 2358
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commit | commitdiff | tree |
| 2007-09-10 |
cjfields | bug 2350
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commit | commitdiff | tree |
| 2007-09-10 |
cjfields | bug 2354
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commit | commitdiff | tree |
| 2007-09-10 |
cjfields | bug 2358, added some more tests for Assembly objects
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commit | commitdiff | tree |
| 2007-09-08 |
cjfields | bug 2358
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commit | commitdiff | tree |
| 2007-09-05 |
cjfields | Shouldn't use Carp, use throw/warn instead
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commit | commitdiff | tree |
| 2007-09-05 |
cjfields | 2357
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commit | commitdiff | tree |
| 2007-09-05 |
cjfields | add in hack for alignment viewer
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commit | commitdiff | tree |
| 2007-09-05 |
cjfields | change sub redefining to to simple handler dispatch
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commit | commitdiff | tree |
| 2007-09-05 |
cjfields | parses 0.81 output (still throwing a warning...)
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commit | commitdiff | tree |
| 2007-09-03 |
cjfields | doc fixes
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commit | commitdiff | tree |
| 2007-08-31 |
cjfields | doc fixes
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commit | commitdiff | tree |
| 2007-08-31 |
cjfields | bug 2203
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commit | commitdiff | tree |
| 2007-08-30 |
cjfields | * Annotation : explain display_text() more explicitly...
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | get rid of extra 'my' declarations
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | Feature-Annotation rollback (merged over from branch)
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | add note about graphics tests; we'll need to allow...
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | remote data from server has changed
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | committed file with DOS line endings which caused warnings...
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commit | commitdiff | tree |
| 2007-08-29 |
cjfields | fix redefined sub warning
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commit | commitdiff | tree |
