jalview.git
2021-09-17 gmungocJAL-1260 refactored GenBank (and EMBL) flat file parser
2021-09-17 Jim ProcterJAL-1260 FileFormat entry for EMBL/GENBANK: TODO: creat...
2021-09-16 Ben SoaresJAL-3779 Added to documentation
2021-09-16 gmungocJAL-3779 apply properties to all groups with given...
2021-09-16 Ben SoaresJAL-3774 combined changes from bug/JAL-3774_splitFrameF...
2021-09-16 Ben SoaresJAL-3739 (combined) commits from feature/JAL-3739_useFo...
2021-09-16 Jim ProcterJAL-3794 X and N are counted as DNA characters, but...
2021-09-16 Jim ProcterJAL-3794 new test for recognition of protein or DNA...
2021-09-16 Ben SoaresJAL-3761 listToArray became rangeListToArray
2021-09-16 gmungocJAL-3761 more consistent parameter naming
2021-09-16 gmungocJAL-3761 helper method reinstated to avoid code duplication
2021-09-16 gmungocJAL-3761 locateInFrom/To revised with tests; unused...
2021-09-16 gmungocJAL-3761 extra check that VCF feature is fully mappable...
2021-09-16 gmungocJAL-3761 debugged and working (but not tidied) locateIn...
2021-09-16 Ben SoaresJAL-3761 listToArray became rangeListToArray
2021-09-16 gmungocJAL-3761 locateInFrom2 work in progress commit
2021-09-15 gmungocJAL-3761 unit test for MapList.countPos()
2021-09-15 gmungocJAL-3761 failing test, formatting, method renamed
2021-09-15 gmungocJAL-3761 failing tests for locateInFrom/To with overlap...
2021-09-15 gmungocJAL-3751 only merge strictly contiguous ranges of mappings
2021-09-15 gmungocJAL-3788 synchronize concurrent findColour() and alignm...
2021-09-15 Ben SoaresJAL-3818 formatting
2021-09-15 gmungocJAL-3818 process Jmol callbacks in AWT thread
2021-09-15 Ben SoaresMerge branch 'develop' into merge/develop_ben2
2021-09-15 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2021-09-15 Ben SoaresJAL-3829 Fixed Jmol jar -- duplicates of other classes...
2021-09-15 Jim ProcterMerge branch 'Jalview-JS/bug/JAL-3762_URLparamsOverride...
2021-09-15 Ben SoaresMerge branch 'develop' into merge/develop_ben2
2021-09-15 Jim ProcterMerge branch 'features/r2_11_2/JAL-3829_3dbeacons'...
2021-09-14 Jim ProcterJAL-3815 default /etc/jalview_properties under utils...
2021-09-14 Jim ProcterJAL-3829 parallel not welcome here
2021-09-14 Jim ProcterJAL-3829 test flakiness and human flakiness
2021-09-14 Jim ProcterJAL-3829 more info on test fail - seems to be flaky
2021-09-14 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2021-09-14 Ben SoaresJAL-3521 Adjusted wrapper shell script and .desktop...
2021-09-14 Ben SoaresJAL-3521 High quality file icons for jalview associated...
2021-09-14 Ben SoaresJAL-3521 Change grouped Jalview windows on linux taskba...
2021-09-14 Jim ProcterMerge branch 'features/r2_11_2/JAL-3829_3dbeacons'...
2021-09-14 Jim ProcterJAL-3551 - doc tweak
2021-09-14 Jim ProcterJAL-3855 JAL-3829 better checks on PDB or mmCIF file...
2021-09-14 Jim ProcterJAL-3829 JAL-3855 moved routing for retrieving structur...
2021-09-14 Jim ProcterJAL-3829 JAL-3855 ignore case when detecting alphafold ID
2021-09-14 Jim ProcterJAL-3855 detect an alphafold model and import its tempe...
2021-09-14 Jim ProcterJAL-3829 move mock query and responses to files
2021-09-14 Ben SoaresJAL-2422 Also look in ~/Applications for ChimeraX on...
2021-09-14 Jim ProcterMerge branch 'develop' into features/r2_11_2/JAL-3829_3...
2021-09-14 Jim ProcterMerge branch 'feature/JAL-2422ChimeraX' into develop
2021-09-14 Jim ProcterJAL-3829 3d-beacons doesn’t work as a sequence source...
2021-09-14 Jim ProcterJAL-3829 avoid sending rubbish to PDBe search api
2021-09-14 Jim ProcterJAL-3829 some providers don’t provide model quality...
2021-09-14 Jim ProcterJAL-3829 allow multiple URL mocks and include P01308...
2021-09-14 Ben SoaresJAL-2422 More helpful highlighting/user guidance of...
2021-09-14 Ben SoaresJAL-2422 Fixed URL encoding of REST calls (broken paths...
2021-09-13 Ben SoaresMerge branch 'develop' of https://source.jalview.org...
2021-09-13 Ben SoaresJAL-2422 Fixed URL encoding of REST calls (broken paths...
2021-09-13 Ben SoaresMerge branch 'develop' into feature/JAL-2422ChimeraX
2021-09-13 Jim ProcterMerge branch 'releases/Release_2_11_2_Branch' into...
2021-09-13 Jim ProcterMerge branch 'features/r2_11_2/JAL-3829_3dbeacons'...
2021-09-13 Jim ProcterMerge branch 'features/r2_11_2/JAL-3829_3dbeacons'...
2021-09-13 Jim ProcterJAL-3829 ensure unmock the FTS PDB and TDB clients...
2021-09-13 Ben SoaresJAL-2422 Added linux rpm and deb install locations...
2021-09-13 Jim ProcterJAL-3829 minimal test of additional TDB filters - not...
2021-09-13 Jim ProcterJAL-3829 select single best TDB structure and select...
2021-09-12 Jim ProcterJAL-3829 JalviewJS workarounds/patches
2021-09-12 Jim ProcterJAL-3829 upgrade Jmol to 14.31.53, SwingJS-JSMol to...
2021-09-11 Jim ProcterJAL-3829 ensure tests use mocked service - proper excep...
2021-09-11 Jim ProcterJAL-3829 patch failing tests and todo for future
2021-09-10 Jim ProcterJAL-3829 provide both PDBe queries and 3D-Beacons queri...
2021-09-10 Jim ProcterJAL-3829 insert title for structures from PDBe
2021-09-10 Jim ProcterJAL-3829 update for v1.0 3d-beacons api spec
2021-09-10 Jim ProcterJAL-3829 point at production 3d-beacons url
2021-09-08 Jim ProcterJAL-3829 refactor and JAL-3391 JAL-2935 first stab...
2021-09-08 Jim ProcterJAL-3829 allow client-side selection of structures...
2021-09-08 Jim ProcterJAL-3829 JAL-3868 TODO
2021-09-08 Jim ProcterJAL-3829 formatting
2021-09-08 Jim ProcterJAL-3829 integration test verifying mock response is...
2021-09-06 Jim ProcterJAL-3829 work in progress - look up additional metadata...
2021-09-06 Jim ProcterJAL-3829 look up column in FTS data
2021-09-06 Jim ProcterJAL-3829 mocking for PDBFTS for related query to Unipro...
2021-09-06 Jim ProcterJAL-3829 pull out structure chooser query source tests...
2021-09-03 Jim ProcterJAL-3829 JAL-3865 test structure chooser queries to...
2021-09-03 Jim ProcterJAL-3829 use sequence dependent constructor for structu...
2021-09-03 Jim ProcterJAL-3829 mocking for testing 3D-Beacons FTS endpoint
2021-09-03 Jim ProcterJAL-3863 promote non-canonical version of dbref to...
2021-09-03 Jim ProcterJAL-3829 comments on the 3D structure chooser’s initial...
2021-09-03 Jim ProcterJAL-3865 isolate PDB and TDB clients and last query...
2021-09-03 Jim ProcterJAL-3863 passing test to verify a uniprot accession...
2021-09-03 Jim ProcterJAL-3829 JAL-3865 StructureChooserQuerySource implement...
2021-09-03 Jim ProcterJAL-3855 don’t need to query Alphafold2 repository...
2021-09-03 Jim ProcterJAL-3829 refactored FilterOption provider to the Struct...
2021-09-02 Jim ProcterMerge branch 'develop' into features/r2_11_2/JAL-3829_3...
2021-09-02 Jim ProcterMerge branch 'cherry-pick/r2_11_2_JAL-3509' into develop
2021-09-02 gmungocJAL-1842 unit test updated for EnsemblGene feature...
2021-09-02 gmungocJAL-1842 adjust code to match changed semantics of...
2021-09-02 gmungocJAL-3509 JAL-1842 minor tidying of code
2021-09-02 gmungocJAL-1842 remove redundant call to FeatureRenderer.featu...
2021-09-02 gmungocJAL-3509 better placement of call to notifyFeaturesChan...
2021-09-02 gmungocJAL-3509 coerce RESNUM to hidden (really) after fetchin...
2021-08-30 Jim ProcterJAL-3863 fix test and note about fragility
2021-08-30 Jim ProcterJAL-3863 add canonical DBRefEntry flag to Jalview project
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