| 2020-10-28 |
Jim Procter | JAL-3725 patch EMBL flat file to exclude stop codon...
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commit | commitdiff | tree |
| 2020-10-28 |
gmungoc | JAL-3725 restrict mapped virtual feature location to...
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commit | commitdiff | tree |
| 2020-10-28 |
gmungoc | JAL-3725 helper methods for computing mapped feature...
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commit | commitdiff | tree |
| 2020-10-28 |
gmungoc | JAL-3725 exclude stop codon from CDS-to-protein mapping
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commit | commitdiff | tree |
| 2020-10-27 |
Jim Procter | JAL-3768 noticed failure of test when run as part of...
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commit | commitdiff | tree |
| 2020-10-27 |
Jim Procter | JAL-3700 JAL-3748 JAL-3763 don’t add stop codon via...
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commit | commitdiff | tree |
| 2020-10-27 |
Jim Procter | update test for JAL-3763 redact shared DS sequences...
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3763 Javadoc, check for null, additional tests
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3751 only merge strictly contiguous ranges of mappings
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3763 test coverage for AlignedCodonFrame.markMappedRegion
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3700 JAL-3763 create datasets for test sequences
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3763 failsafe check for null
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3763 refactored getCoveringMapping for virtual...
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3763 always make a new dataset sequence for CDS...
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commit | commitdiff | tree |
| 2020-10-22 |
gmungoc | JAL-3700 additions and corrections to unit tests
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 not testing for sequence’s containment in...
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 fix compilation error
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 maximal test for JAL-3748 using covid19 CDS...
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 more tests verifying reconstruction of AlignemntVie...
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 reusable assert to trace specific issues with...
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commit | commitdiff | tree |
| 2020-09-23 |
Jim Procter | JAL-3748 allow AlignedCodonFrame.covers to optionally...
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commit | commitdiff | tree |
| 2020-09-22 |
Jim Procter | JAL-3748 test data for SplitFrameTest
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commit | commitdiff | tree |
| 2020-09-22 |
Jim Procter | JAL-3748 don’t trash start/end on SequenceI reconstructed...
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commit | commitdiff | tree |
| 2020-09-22 |
Jim Procter | JAL-3748 simple test for SeqCigar preservation of start...
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commit | commitdiff | tree |
| 2020-09-22 |
Jim Procter | JAL-3748 additional asserts to verify start/end after...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3748 preserve sequence IDs from original alignment...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3748 recover complement alignment from complement...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3748 make findAlignedSequence require mapped from...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3748 pass a list to findAlignedSequence to return...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3700 JAL-3748 use AlignedCodonFrame.covers(seq...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3700 JAL-3748 AlignedCodonFrame.covers(seq,true...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | Merge branch 'failingTest/JAL-3748_reconstructCDSafterProtei...
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commit | commitdiff | tree |
| 2020-09-16 |
gmungoc | JAL-3700 fix for propagation of sort commands
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commit | commitdiff | tree |
| 2020-09-16 |
gmungoc | JAL-3700 check for 'covering' mapping when matching...
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commit | commitdiff | tree |
| 2020-09-16 |
Jim Procter | JAL-3748 store an AlignmentView for the complement...
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commit | commitdiff | tree |
| 2020-09-15 |
Jim Procter | JAL-3675 logged JAL-3748 as known defect
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commit | commitdiff | tree |
| 2020-09-15 |
Jim Procter | JAL-3765 JAL-3718 release notes
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commit | commitdiff | tree |
| 2020-09-15 |
Jim Procter | Merge branch 'patch/JAL-3718_fixed_getdown_patched_for_Relea...
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commit | commitdiff | tree |
| 2020-09-15 |
Jim Procter | JAL-3675 typo in release notes :(
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commit | commitdiff | tree |
| 2020-09-15 |
Jim Procter | JAL-3675 update release date and release notes for...
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3675 update release date and release notes for...
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | Merge branch 'improvement/JAL-3280_Migrate_the_VersionChecke...
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3675 whats new, logging and release notes tidying...
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3676 rework logging docs.
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | Merge branch 'bug/JAL-3718_Getdown_does_not_autoupdate_corre...
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3676 remove mention of Castor
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3675 tweak release notes for JAL-3667, JAL-3702
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commit | commitdiff | tree |
| 2020-09-03 |
Jim Procter | JAL-3675 update sequence fetcher service documentation...
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commit | commitdiff | tree |
| 2020-08-31 |
Jim Procter | JAL-3680 merged description of individual cursor key...
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commit | commitdiff | tree |
| 2020-08-31 |
Jim Procter | JAL-3732 - sequences can be moved up/down in cursor...
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commit | commitdiff | tree |
| 2020-08-25 |
Jim Procter | report JAL-3127 as known defect (fix targeted for 2...
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commit | commitdiff | tree |
| 2020-08-25 |
Jim Procter | JAL-3671 hardwire log4j.root logger to INFO to supress...
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commit | commitdiff | tree |
| 2020-08-21 |
Jim Procter | JAL-3675 2.11.1.1 java 8 compatible patch for JAL-3615...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3675 release notes for JAL-3691
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | Merge branch 'patch/JAL-3691_No_score_models_available...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3675 JAL-3561 documented in release notes
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3675 report JAL-3702 as known defect
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | Merge branch 'patch/JAL-3561_JAL-3660_fileformatexport_CLI...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3712 fix typos for rebuilding/updating getdown...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3490 JAL-3675 release notes, update Find dialog...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | Merge branch 'patch/Release_2_11_1_Branch_patch_JAL...
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | JAL-3675 JAL-3597 release notes
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commit | commitdiff | tree |
| 2020-08-17 |
Jim Procter | Merge branch 'patch/JAL-3597_for_Release_2_11_1_Branch...
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commit | commitdiff | tree |
| 2020-08-13 |
Jim Procter | JAL-3675 brought forward patch to build.gradle for...
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commit | commitdiff | tree |
| 2020-08-13 |
Jim Procter | Merge branch 'releases/Release_2_11_1_Branch' of http...
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commit | commitdiff | tree |
| 2020-08-12 |
Jim Procter | JAL-3675 added JAL-3576 as known defect (colocated...
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commit | commitdiff | tree |
| 2020-08-12 |
Ben Soares | JAL-3608 Changes from code review CR-JAL-236
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commit | commitdiff | tree |
| 2020-08-11 |
Jim Procter | JAL-3675 fix issue attribution for JAL-3667 release...
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commit | commitdiff | tree |
| 2020-08-11 |
Jim Procter | JAL-3675 update release notes for JAL-3673 and tested...
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commit | commitdiff | tree |
| 2020-08-11 |
Jim Procter | JAL-3673 make sure font metrics are updated if dealing...
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commit | commitdiff | tree |
| 2020-08-11 |
Jim Procter | Merge branch 'bug/JAL-2983negativeSliderMin' into releases...
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commit | commitdiff | tree |
| 2020-08-10 |
gmungoc | JAL-3490 match count independent of contiguous matches...
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commit | commitdiff | tree |
| 2020-08-10 |
Jim Procter | JAL-3691 toUpperCase(Locale.ROOT) for all standard...
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commit | commitdiff | tree |
| 2020-08-10 |
Jim Procter | Merge branch 'releases/Release_2_11_1_Branch' into...
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commit | commitdiff | tree |
| 2020-08-10 |
Jim Procter | JAL-3628 JAL-3708 call Cache.initLogger() before using...
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commit | commitdiff | tree |
| 2020-08-05 |
Jim Procter | JAL-3628 init log after loading testProps for each...
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commit | commitdiff | tree |
| 2020-08-05 |
Jim Procter | Merge branch 'patch/JAL-3692enaEndpointFlatfile' into...
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commit | commitdiff | tree |
| 2020-08-05 |
gmungoc | JAL-3692 unit test updated for ?gzip download endpoint URL
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commit | commitdiff | tree |
| 2020-08-05 |
gmungoc | JAL-3692 parse multiline feature qualifiers and escaped...
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commit | commitdiff | tree |
| 2020-08-05 |
Jim Procter | JAL-3675 release notes for JAL-3477, JAL-3667, JAL...
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commit | commitdiff | tree |
| 2020-08-05 |
Jim Procter | Merge branch 'merge/JAL-3628+JAL-3608+JAL-3609+JAL...
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commit | commitdiff | tree |
| 2020-08-03 |
Jim Procter | JAL-3675 report JAL-3701 as known defect
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commit | commitdiff | tree |
| 2020-08-03 |
Jim Procter | JAL-3675 release notes for JAL-3692
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commit | commitdiff | tree |
| 2020-08-03 |
Jim Procter | Merge branch 'patch/JAL-3692enaEndpointFlatfile' into...
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commit | commitdiff | tree |
| 2020-08-03 |
Jim Procter | JAL-3692 fix up test for 2.11.1 series datamodel API
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 set CDS /product as EMBLCDSPROTEIN description
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 refactor/complete parsing, more unit test...
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 parse DE for description, and other refactoring...
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 URL tests updated
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 unit test (J03321), fixes, dbrefs; todo: protein...
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commit | commitdiff | tree |
| 2020-08-03 |
gmungoc | JAL-3692 EMBL flatfile fetcher / parser (todo: CDS...
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commit | commitdiff | tree |
| 2020-07-29 |
Jim Procter | Merge branch 'bug/JAL-2983negativeSliderMin' into releases...
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commit | commitdiff | tree |
| 2020-07-29 |
Jim Procter | JAL-3371 JAL-2983 don't modify 'extent' of slider ...
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commit | commitdiff | tree |
| 2020-07-29 |
Jim Procter | JAL-3675 mention -open argument in the command line...
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commit | commitdiff | tree |
| 2020-07-29 |
Jim Procter | JAL-3675 JAL-3570 JAL-3608 JAL-2983 release notes and...
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commit | commitdiff | tree |
| 2020-07-28 |
Jim Procter | JAL-3675 update release note for JAL-2656
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commit | commitdiff | tree |
| 2020-07-28 |
Jim Procter | JAL-2656 recognise non-HTTP URI input streams as gzipped...
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commit | commitdiff | tree |
| 2020-07-28 |
Jim Procter | JAL-2656 recognise Gzipped file input streams by their...
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commit | commitdiff | tree |
| 2020-07-28 |
Jim Procter | JAL-3615 update tests for Rfam/Pfam specific gzip endpoints
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commit | commitdiff | tree |
| 2020-07-27 |
Jim Procter | JAL-3675 release notes for JAL-3615 and JAL-2656
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commit | commitdiff | tree |
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