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JAL-3594 added BG and UoD logo and banner to splashscreens, and adjusted status text box
[jalview.git]
/
src
/
jalview
/
2021-09-23
Jim Procter
JAL-3821 less ambiguous base class name for EMBL and...
tree
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commitdiff
2021-09-23
Jim Procter
JAL-3821 ported to refactored FlatFile parser
tree
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commitdiff
2021-09-23
Jim Procter
JAL-3692 JAL-3861 remove extra call to .parse() so...
tree
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commitdiff
2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
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commitdiff
2021-09-21
Jim Procter
Merge branch 'doc/JAL-3746_Release_2_11_2' into develop
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commitdiff
2021-09-21
Jim Procter
Merge branch 'features/r2_11_2/JAL-3829_3dbeacons'...
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commitdiff
2021-09-21
Jim Procter
JAL-3829 - callback finessing - leave DBRefFetcher...
tree
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commitdiff
2021-09-21
Jim Procter
JAL-3829 prefix PDBe filters with PDBe to make clear...
tree
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commitdiff
2021-09-21
Jim Procter
JAL-3829 alternative UX: need to select 3d-beacons...
tree
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commitdiff
2021-09-21
Jim Procter
JAL-3829 ignore the fake ID generated when a PDB format...
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 tests need to wait for dialog to be closed...
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commitdiff
2021-09-20
Jim Procter
JAL-3829 TDBeacons fetcher needs a sequence with at...
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 throw the exception even if it has no message
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 ensure nulls are not wildcards when retrieving...
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 do better at detecting structure type, prompt...
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commitdiff
2021-09-20
Jim Procter
JAL-3829 make sure structure data type reflects actual...
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commitdiff
2021-09-20
Jim Procter
JAL-3829 store 3db metadata on PDBEntry so it can be...
tree
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commitdiff
2021-09-20
Jim Procter
JAL-3829 allow PDBEntry with file and ID with mismatchi...
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commitdiff
2021-09-17
Ben Soares
Merge branch 'merge/develop_JAL-1260' into develop
tree
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commitdiff
2021-09-17
Ben Soares
JAL-1260 rudimentary parsing of LOCUS line to at least...
tree
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commitdiff
2021-09-17
Jim Procter
Merge branch 'develop' into features/r2_11_2/JAL-3829_3...
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commitdiff
2021-09-17
Jim Procter
JAL-3079 JAL-3055 remember to reset font transform...
tree
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commitdiff
2021-09-17
gmungoc
JAL-1260 refactored multi-line qualifier separators
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commitdiff
2021-09-17
gmungoc
JAL-1260 file formats and IdentifyFile updates for...
tree
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commitdiff
2021-09-17
gmungoc
JAL-1260 refactored GenBank (and EMBL) flat file parser
tree
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commitdiff
2021-09-17
Jim Procter
JAL-1260 FileFormat entry for EMBL/GENBANK: TODO: creat...
tree
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commitdiff
2021-09-17
Jim Procter
JAL-2226 new method to search for annotation matching...
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commitdiff
2021-09-17
Jim Procter
JAL-3829 belt and braces check to make sure there is...
tree
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commitdiff
2021-09-16
gmungoc
JAL-3779 apply properties to all groups with given...
tree
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commitdiff
2021-09-16
Ben Soares
JAL-3774 combined changes from bug/JAL-3774_splitFrameF...
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commitdiff
2021-09-16
Jim Procter
Merge branch 'develop' into doc/JAL-3746_Release_2_11_2
tree
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commitdiff
2021-09-16
Ben Soares
JAL-3739 (combined) commits from feature/JAL-3739_useFo...
tree
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commitdiff
2021-09-16
Jim Procter
JAL-3794 X and N are counted as DNA characters, but...
tree
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commitdiff
2021-09-16
gmungoc
JAL-3761 more consistent parameter naming
tree
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commitdiff
2021-09-16
gmungoc
JAL-3761 helper method reinstated to avoid code duplication
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commitdiff
2021-09-16
gmungoc
JAL-3761 locateInFrom/To revised with tests; unused...
tree
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commitdiff
2021-09-16
gmungoc
JAL-3761 extra check that VCF feature is fully mappable...
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commitdiff
2021-09-16
gmungoc
JAL-3761 debugged and working (but not tidied) locateIn...
tree
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commitdiff
2021-09-16
Ben Soares
JAL-3761 listToArray became rangeListToArray
tree
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commitdiff
2021-09-16
gmungoc
JAL-3761 locateInFrom2 work in progress commit
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commitdiff
2021-09-15
gmungoc
JAL-3761 failing test, formatting, method renamed
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commitdiff
2021-09-15
gmungoc
JAL-3751 only merge strictly contiguous ranges of mappings
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commitdiff
2021-09-15
gmungoc
JAL-3788 synchronize concurrent findColour() and alignm...
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commitdiff
2021-09-15
Ben Soares
JAL-3818 formatting
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commitdiff
2021-09-15
gmungoc
JAL-3818 process Jmol callbacks in AWT thread
tree
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commitdiff
2021-09-15
Ben Soares
Merge branch 'develop' into merge/develop_ben2
tree
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commitdiff
2021-09-15
Jim Procter
Merge branch 'Jalview-JS/bug/JAL-3762_URLparamsOverride...
tree
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commitdiff
2021-09-15
Jim Procter
JAL-3746 fix bad merge from 2.11.1.4/5 branch cherrypick
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commitdiff
2021-09-15
Jim Procter
JAL-3741 http to https (and jar to jvp for exampleFile...
tree
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commitdiff
2021-09-15
Jim Procter
JAL-3638 JAL-3680 fix docs for Alt + Arrow LRUD in...
tree
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commitdiff
2021-09-15
Ben Soares
Merge branch 'develop' into merge/develop_ben2
tree
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commitdiff
2021-09-14
Ben Soares
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2021-09-14
Ben Soares
JAL-3521 Change grouped Jalview windows on linux taskba...
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3551 - doc tweak
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3855 JAL-3829 better checks on PDB or mmCIF file...
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3829 JAL-3855 moved routing for retrieving structur...
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commitdiff
2021-09-14
Jim Procter
JAL-3829 JAL-3855 ignore case when detecting alphafold ID
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commitdiff
2021-09-14
Jim Procter
JAL-3855 detect an alphafold model and import its tempe...
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commitdiff
2021-09-14
Jim Procter
JAL-3829 move mock query and responses to files
tree
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commitdiff
2021-09-14
Jim Procter
Merge branch 'develop' into features/r2_11_2/JAL-3829_3...
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3829 3d-beacons doesn’t work as a sequence source...
tree
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commitdiff
2021-09-14
Jim Procter
JAL-3829 avoid sending rubbish to PDBe search api
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commitdiff
2021-09-14
Jim Procter
JAL-3829 some providers don’t provide model quality...
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commitdiff
2021-09-14
Jim Procter
JAL-3829 allow multiple URL mocks and include P01308...
tree
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commitdiff
2021-09-14
Ben Soares
JAL-2422 More helpful highlighting/user guidance of...
tree
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commitdiff
2021-09-13
Ben Soares
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2021-09-13
Ben Soares
Merge branch 'develop' into feature/JAL-2422ChimeraX
tree
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commitdiff
2021-09-13
Jim Procter
JAL-3829 select single best TDB structure and select...
tree
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commitdiff
2021-09-12
Jim Procter
JAL-3829 JalviewJS workarounds/patches
tree
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commitdiff
2021-09-11
Jim Procter
JAL-3829 ensure tests use mocked service - proper excep...
tree
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commitdiff
2021-09-11
Jim Procter
JAL-3829 patch failing tests and todo for future
tree
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commitdiff
2021-09-10
Jim Procter
JAL-3829 provide both PDBe queries and 3D-Beacons queri...
tree
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commitdiff
2021-09-10
Jim Procter
JAL-3829 insert title for structures from PDBe
tree
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commitdiff
2021-09-10
Jim Procter
JAL-3829 update for v1.0 3d-beacons api spec
tree
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commitdiff
2021-09-10
Jim Procter
JAL-3829 point at production 3d-beacons url
tree
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commitdiff
2021-09-08
Jim Procter
JAL-3829 refactor and JAL-3391 JAL-2935 first stab...
tree
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commitdiff
2021-09-08
Jim Procter
JAL-3829 allow client-side selection of structures...
tree
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commitdiff
2021-09-08
Jim Procter
JAL-3829 JAL-3868 TODO
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commitdiff
2021-09-06
Jim Procter
JAL-3829 work in progress - look up additional metadata...
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commitdiff
2021-09-06
Jim Procter
JAL-3829 look up column in FTS data
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commitdiff
2021-09-06
Jim Procter
JAL-3829 mocking for PDBFTS for related query to Unipro...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3829 mocking for testing 3D-Beacons FTS endpoint
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commitdiff
2021-09-03
Jim Procter
JAL-3863 promote non-canonical version of dbref to...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3829 comments on the 3D structure chooser’s initial...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3865 isolate PDB and TDB clients and last query...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3863 passing test to verify a uniprot accession...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3829 JAL-3865 StructureChooserQuerySource implement...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3855 don’t need to query Alphafold2 repository...
tree
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commitdiff
2021-09-03
Jim Procter
JAL-3829 refactored FilterOption provider to the Struct...
tree
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commitdiff
2021-09-02
Jim Procter
Merge branch 'develop' into features/r2_11_2/JAL-3829_3...
tree
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commitdiff
2021-09-02
gmungoc
JAL-1842 adjust code to match changed semantics of...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 JAL-1842 minor tidying of code
tree
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commitdiff
2021-09-02
gmungoc
JAL-1842 remove redundant call to FeatureRenderer.featu...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 better placement of call to notifyFeaturesChan...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 coerce RESNUM to hidden (really) after fetchin...
tree
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commitdiff
2021-08-30
Jim Procter
JAL-3863 add canonical DBRefEntry flag to Jalview project
tree
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commitdiff
2021-08-30
Jim Procter
JAL-3829 generalised Alphafold retrieval mechanism...
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commitdiff
2021-08-30
Jim Procter
JAL-3863 mark first accession retrieved from Uniprot...
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commitdiff
2021-08-30
Jim Procter
JAL-3829 Structure chooser specific FTS interface and...
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commitdiff
2021-08-30
Jim Procter
Merge branch 'feature/JAL-3855_ebi_alphafold_import...
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