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2016-08-22 Jim ProcterJAL-2154 patch verifyAlignment so it fails for duplicat... commit | commitdiff | tree | snapshot
2016-08-22 Jim ProcterJAL-2154 tidy assert messages and fix test to verify... commit | commitdiff | tree | snapshot
2016-08-22 Jim ProcterJAL-2154 test that verifyAlignment fails for duplicate... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 - possible patch .. but leads to new stringify... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 major rejigging of test looping again commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 disable DAS sources for Jalview2XML tests commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 fix looping structure so for a particular... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 drop unused hashes commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 testNG like assertAlignmentDatasetRefs static... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 reorder the dataset sequences according to... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 belt-and-braces patch: commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 verify mapping’s sequenceI ref has been resolv... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 use right reference string for recovering... commit | commitdiff | tree | snapshot
2016-08-19 Jim ProcterJAL-2154 refactor setSequenceAt to replaceSequenceAt... commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 verify sequenceI/dataset refs for codonmappings commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 make sure any new sequences via DBRefEntry... commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 check alignment isn’t null before validating commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 always resolve dataset sequences when creating... commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 [test] verify reference integrity for alignmen... commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 formatting commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 new assert to check reference integrity for... commit | commitdiff | tree | snapshot
2016-08-16 Jim ProcterJAL-2154 xref test harness - test fails if there are... commit | commitdiff | tree | snapshot
2016-08-13 Jim ProcterJAL-2154 refactor CrossRef UI code to its own class commit | commitdiff | tree | snapshot
2016-08-13 Jim ProcterJAL-2154 check if the desktop is constructed before... commit | commitdiff | tree | snapshot
2016-08-13 Jim ProcterJAL-2154 ignore all but the primary source resolved... commit | commitdiff | tree | snapshot
2016-08-13 Jim ProcterJAL-2154 make sure we wait for constructor thread to... commit | commitdiff | tree | snapshot
2016-08-11 Jim ProcterJAL-2154 clear the desktop before every 2xml test commit | commitdiff | tree | snapshot
2016-08-11 Jim ProcterJAL-2154 jalview.gui.SequenceFetcher.fetchAndShow(db... commit | commitdiff | tree | snapshot
2016-08-11 Jim ProcterJAL-2154 JAL-1993 relocate show dbchooser action out... commit | commitdiff | tree | snapshot
2016-08-11 Jim ProcterJAL-2154 refactor setup/teardown from Jalview2xml for... commit | commitdiff | tree | snapshot
2016-08-07 Jim ProcterJAL-2154 add in missing class for createDatasetAlignmen... commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2154 make sure codon mappings between sequences... commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2154 todo commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2154 use convenience method commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2154 make sure all sequences referenced via DBRefEn... commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2110 comment on failing test (consider skipping... commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2154 test for CDS->protein map commit | commitdiff | tree | snapshot
2016-08-04 Jim ProcterJAL-2046 stack trace for implementation warning commit | commitdiff | tree | snapshot
2016-08-04 gmungocJAL-2008 handle fast mouse drag of feature ordering... commit | commitdiff | tree | snapshot
2016-08-04 gmungocJAL-2015 convert Color from colour picker to FeatureColour commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterJAL-2046 additional logic to suppress spurious implemen... commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterMerge branch 'efficiency/JAL-2034_JAL-1421' into develop commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterJAL-2034 show greyed out image during overview update commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterMerge branch 'develop' into efficiency/JAL-2034_JAL... commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterJAL-2068 reinstated false return value for notifyWorking commit | commitdiff | tree | snapshot
2016-08-02 Jim ProcterMerge branch 'develop' into efficiency/JAL-2034_JAL... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterJAL-2164 TODO: make test pass for JMOL_PARSER commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterJAL-2164 JAL-1919 JAL-1270 use structure import setting... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-08-01 tcofoegbuJAL-2164 bugfix to convert insCodes of '\000' to '... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterMerge branch 'bug/JAL-2154projectMappings' into develop commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterMerge branch 'task/JAL-2164_mcviewforoldjalviewprojects... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterJAL-2164 prevent jalview news from opening task/JAL-2164_mcviewforoldjalviewprojects commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterJAL-2164 clear the desktop before testStoreAndRecoverEx... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterMerge branch 'task/JAL-2164_mcviewforoldjalviewprojects... commit | commitdiff | tree | snapshot
2016-08-01 Jim ProcterJAL-1772 make sure we actually return reference to... commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-1772 JAL-2164 make expanded view save/restore test... commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-2164 JAL-1772 explodeViews can be static, so make... commit | commitdiff | tree | snapshot
2016-07-29 tcofoegbuJAL-1957 JAL-1479 updated SIFTS user docs commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-2164 revert tests depending on import of legacy... commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-2154 disable visual delay only after completed... commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-2154 register any new dataset codon frames only... commit | commitdiff | tree | snapshot
2016-07-29 Jim ProcterJAL-2154 only include mappings in dbref/alcodon in... commit | commitdiff | tree | snapshot
2016-07-29 tcofoegbuJAL-2157 fixed Jalview2xmlTest commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterJAL-2154 toString for forward references commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterMerge branch 'patch/JAL-2156_JAL-2163_saveSplitFrameFro... commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterJAL-2163 set title for the alignframe from restored... patch/JAL-2156_JAL-2163_saveSplitFrameFromSaveAs_restoreTitles commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterJAL-2156 resolve and add complementary views for saveAl... commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterJAL-2156 refactor saveState & saveAlignment to common... commit | commitdiff | tree | snapshot
2016-07-27 Jim ProcterJAL-2156 getter for AlignFrame(s) held in a splitframe commit | commitdiff | tree | snapshot
2016-07-27 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-07-27 tcofoegbuJAL-1919 added codes for End-2-End scan for sequence... commit | commitdiff | tree | snapshot
2016-07-26 Jim ProcterJAL-2157 todo: verify parser/file format enums and... commit | commitdiff | tree | snapshot
2016-07-26 tcofoegbuJAL-2157 bugfix for issues from enum refactoring commit | commitdiff | tree | snapshot
2016-07-25 tcofoegbuJAL-2157 bugfix for regression from commit 82a6c8e2e25b... commit | commitdiff | tree | snapshot
2016-07-24 Jim ProcterJAL-2154 formatting commit | commitdiff | tree | snapshot
2016-07-24 Jim ProcterJAL-2154 keep track of incomplete sequences and report... commit | commitdiff | tree | snapshot
2016-07-24 Jim ProcterJAL-2154 systematic pattern for defining/resolving... commit | commitdiff | tree | snapshot
2016-07-23 Jim ProcterJAL-2154 patch the hack (Jalview2XML tests pass) commit | commitdiff | tree | snapshot
2016-07-22 tcofoegbuJAL-2148 Bugfix in structureImportSettings string-to... commit | commitdiff | tree | snapshot
2016-07-21 tcofoegbuResolve merge conflict for StructureImportSettings commit | commitdiff | tree | snapshot
2016-07-21 tcofoegbuJAL-2148 fix to heuristically determine chain terminati... commit | commitdiff | tree | snapshot
2016-07-21 Jim ProcterMerge branch 'apifix/JAL-1926_JAL-2106' into develop commit | commitdiff | tree | snapshot
2016-07-20 gmungocJAL-2154 poke JSeq start/end into Vamsas sequence commit | commitdiff | tree | snapshot
2016-07-20 Jim ProcterJAL-1926 JAL-2106 fix name for flag controlling additio... commit | commitdiff | tree | snapshot
2016-07-20 Jim ProcterJAL-1926 JAL-2106 don’t use PDB database constant as... commit | commitdiff | tree | snapshot
2016-07-20 Jim ProcterJAL-1926 JAL-2106 use enum for ‘DEFAULT_STRUCTURE_FORMA... commit | commitdiff | tree | snapshot
2016-07-20 Jim ProcterJAL-1926 JAL-2106 remove startRes/endRes fields - not... commit | commitdiff | tree | snapshot
2016-07-20 gmungocJAL-2023 stronger check for whether to start cdna consensus commit | commitdiff | tree | snapshot
2016-07-20 gmungocJAL-2023 avoid writing / loading empty mappings commit | commitdiff | tree | snapshot
2016-07-20 gmungocJAL-2023 JAL-1681 fixed bug in computing '+' for co... commit | commitdiff | tree | snapshot
2016-07-20 gmungocJAL-2068 AnnotationWorker create/update annotation... commit | commitdiff | tree | snapshot
2016-07-19 gmungocJAL-2068 small refactor to reuse shared method commit | commitdiff | tree | snapshot
2016-07-19 gmungocJAL-2068 update rather than recreate AlignmentAnnotatio... commit | commitdiff | tree | snapshot
2016-07-19 gmungocJAL-391 corrected handling of gapped sequences commit | commitdiff | tree | snapshot
2016-07-19 tcofoegbuMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-07-19 tcofoegbuJAL-1919 set default structure file format to mmCIF... commit | commitdiff | tree | snapshot
2016-07-19 Jim ProcterMerge branch 'develop' into efficiency/JAL-2034_JAL... commit | commitdiff | tree | snapshot
2016-07-18 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... commit | commitdiff | tree | snapshot
2016-07-18 Jim ProcterJAL-666 patch JAL-1947 in applet where overview is... commit | commitdiff | tree | snapshot
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