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 |
2007-08-23 |
cjfields | fix POD syntax
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commit | commitdiff | tree |
2007-08-21 |
cjfields | initial commit; simple index class for Rfam/Pfam alignments
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commit | commitdiff | tree |
2007-08-21 |
cjfields | catch ERROR flag
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commit | commitdiff | tree |
2007-08-20 |
cjfields | speed up indexing, add id_parser() method
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commit | commitdiff | tree |
2007-08-20 |
cjfields | add convenience method to munge IDs from file if asked...
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commit | commitdiff | tree |
2007-08-20 |
cjfields | add docsum printing convenience method.
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commit | commitdiff | tree |
2007-08-20 |
cjfields | Catch algorithm and version if -m 9
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commit | commitdiff | tree |
2007-08-20 |
cjfields | Initial commit; index class for -m 9 BLAST output
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commit | commitdiff | tree |
2007-08-08 |
cjfields | add use statement if only wanting to index; fix debugging
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commit | commitdiff | tree |
2007-08-02 |
cjfields | infernal 0.81 parsing not implemented yet
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commit | commitdiff | tree |
2007-08-02 |
cjfields | bug fix and cleanup; genemap not loaded in some cases...
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commit | commitdiff | tree |
2007-07-30 |
cjfields | bug 2335
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commit | commitdiff | tree |
2007-07-24 |
cjfields | forogt to commit docs
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commit | commitdiff | tree |
2007-07-24 |
cjfields | take out history setting from LinkSet for now until...
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commit | commitdiff | tree |
2007-07-24 |
cjfields | small fix for entrez links
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commit | commitdiff | tree |
2007-07-24 |
cjfields | Simplify; remove history queue and make epost part...
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commit | commitdiff | tree |
2007-07-23 |
cjfields | Catch failing tie'd DB_File handle
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commit | commitdiff | tree |
2007-07-19 |
cjfields | bug 2334
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commit | commitdiff | tree |
2007-07-18 |
cjfields | Bug 2212
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commit | commitdiff | tree |
2007-07-18 |
cjfields | bug 2286
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commit | commitdiff | tree |
2007-07-17 |
cjfields | add XML::DOM::XPath
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commit | commitdiff | tree |
2007-07-17 |
cjfields | Stop complaints with '.' (attributeless features);...
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commit | commitdiff | tree |
2007-07-17 |
cjfields | Bug 2302
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commit | commitdiff | tree |
2007-07-17 |
cjfields | bug 2178
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commit | commitdiff | tree |
2007-07-17 |
cjfields | doc fixes for ace parsing, clarify warning more
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commit | commitdiff | tree |
2007-07-17 |
cjfields | fix use base()
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commit | commitdiff | tree |
2007-07-17 |
cjfields | add unimplemented method write_assembly; removed SeqIO...
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commit | commitdiff | tree |
2007-07-17 |
cjfields | bug 2320
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commit | commitdiff | tree |