JAL-4034 fix 1 - reword button
[jalview.git] / src / jalview / structure /
2022-03-08 Jim ProcterJAL-3746 apply copyright to source
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0
2022-02-15 Jim ProcterJAL-1761 backbone type parameter for configuring which...
2022-02-15 Jim ProcterJAL-1761 need to pass molecule type when generating...
2022-02-11 Jim ProcterJAL-3949 - refactor logging from jalview.bin.Cache...
2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework...
2021-12-13 Jim ProcterJAL-3929 preserve lowercase pdbid in group name for...
2021-12-08 Jim ProcterJAL-3929 don’t use the url encoded pdbId in feature...
2021-11-08 Jim ProcterJAL-3855 try harder to ignore DNA/RNA only structures...
2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperC...
2021-09-08 Jim ProcterJAL-3829 JAL-3868 TODO
2021-07-27 Jim ProcterJAL-3855 suppress NPE when trying to retrieve SIFTS...
2020-09-10 gmungocJAL-3518 removed unneeded override in ChimeraCommands
2020-06-25 gmungocJAL-3518 pull up [get|list]ResidueAttributes to Structu...
2020-06-23 gmungocJAL-3518 separation of ChimeraXManager, pull up of...
2020-06-23 gmungocJAL-3518 pull up closeViewer() and external viewer...
2020-06-01 gmungocJAL-3518 more test coverage for structure commands
2020-05-29 gmungocMerge branch 'feature/JAL-3551Pymol' into develop
2020-05-26 gmungocJAL-3624 log when SIFTS mapping fails
2020-05-26 gmungocJAL-1761 pattern for structure viewer construction...
2020-05-21 gmungocJAL-3551 copy Jalview features to Pymol 'p' (with pull...
2020-05-19 gmungocMerge branch 'develop' into feature/JAL-3551Pymol
2020-05-11 gmungocJAL-3551 concatenate colour by sequence commands for...
2020-03-16 gmungocJAL-3551 tidying, improved commands, fix Jmol model...
2020-03-13 gmungocJAL-3551 working proof of concept of Jalview driving...
2020-03-03 gmungocJAL-3518 more pull up / test coverage of structure...
2020-02-28 gmungocJAL-3518 basic refactoring / pull up of superposeStruct...
2020-02-21 gmungocJAL-3518 more extraction of ChimeraX commands as overrides
2020-02-20 gmungocJAL-2422 pull-up refactoring of structure commands...
2020-01-14 gmungocJAL-2422 proof of concept adaptations for ChimeraX...
2019-10-08 gmungocMerge branch 'develop' into Jalview-JS/develop
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge
2019-06-06 gmungocMerge branch 'develop' into trialMerge
2019-05-01 gmungocJAL-3244 ignore file path separator when comparing...
2019-03-21 Ben SoaresJAL-3130 Replaced deprecated Class.newInstance() with...
2019-02-19 gmungocJAL-3187 hacks to get peptide variant in to Jmol hover...
2018-08-21 hansonrmc_view references were MCview
2018-05-07 Jim ProcterJAL-2321 use configured values for structure derived...
2018-05-07 Jim ProcterJAL-2321 add secondary structure & temp factor if not...
2018-04-13 gmungocMerge branch 'features/JAL-2944_openStructuresInSelecte... features/JAL-2944_openStructuresInSelectedView
2018-04-12 gmungocJAL-2223 don't add duplicate mappings to StructureSelec...
2018-04-12 gmungocJAL-2944 tidies for review comments
2018-04-11 Jim ProcterJAL-2946 catch unexpected SIFTS mapping exceptions...
2018-02-13 Jim ProcterJAL-2781 null local siftsClient variable if exception...
2018-02-13 Jim ProcterJAL-2781 refactor StructureSelectionManager.siftsClient...
2018-02-13 Jim ProcterJAL-2781 FIXME: value of sourceType parameter always...
2018-02-13 Jim ProcterJAL-2781 refactor possibly non-functional ‘extract...
2018-02-13 Jim ProcterJAL-2781 tidy up comments on getMapping/computeMapping
2018-02-11 Jim ProcterJAL-2781 use SIFTs mapping rather than maxChain AlignSe...
2018-02-11 Jim ProcterJAL-2781 mark aligned positions via StructureMapping...
2018-02-11 Jim ProcterJAL-2780 JAL-2781 UNASSIGNED positions marked as Intege...
2018-02-07 Jim ProcterJAL-2780 JAL-2781 fix javadoc in line with behaviour...
2017-10-27 gmungocJAL-1793 spike branch updated to latest
2017-10-25 Jim ProcterMerge branch 'bug/JAL-2392_deadlockonpdbdisplay' into...
2017-10-24 gmungocJAL-2495 highlight all mapped sequences from structure...
2017-10-10 Jim ProcterMerge branch 'codereviews/JAL-1990_IProgressIndicator_j...
2017-10-03 gmungocJAL-2738 copy to spikes/mungo
2017-08-27 Jim ProcterJAL-2693 TODO comments
2017-08-16 Jim ProcterJAL-2418 source formatting
2017-06-09 gmungocJAL-2446 merged to spike branch
2017-05-29 Jim ProcterMerge branch 'features/JAL-2465_No-mapping_Jmol-structu...
2017-05-09 tcofoegbuJAL-2465 fix to dynamically specify data source type...
2017-05-08 tcofoegbuMerge branch 'develop' of https://source.jalview.org...
2017-05-05 kiramtMerge remote-tracking branch 'origin/develop' into features/JAL-2388hiddencolumnschanges
2017-05-01 tcofoegbuJAL-2465 bugfix and rerefactor renamed getPdbFile(...
2017-04-24 kiramtJAL-2388 Hidden cols separated from column selection...
2017-03-23 gmungocMerge branch 'develop' into features/JAL-2393customMatrices
2017-03-08 gmungocJAL-2430 colour columns hidden in alignment gray on...
2017-03-07 gmungocJAL-2295 status messages for Chimera attributes set...
2017-02-13 gmungocJAL-1632 JAL-2416 load score matrices from file, as...
2016-12-08 gmungocMerge branch 'bug/JAL-2358phantomChimera' into spikes...
2016-12-08 gmungocJAL-2358 ensure mappings removed on close Chimera;... bug/JAL-2358phantomChimera
2016-11-29 gmungocMerge branch 'develop' into features/JAL-2295setChimera...
2016-11-25 gmungocMerge branch 'develop' into trialMerge
2016-11-23 gmungocMerge branch 'develop' into features/JAL-2295setChimera...
2016-11-22 Jim ProcterMerge branch 'features/JAL-1738_JAL-345_selectionfromhi...
2016-11-14 gmungocJAL-2296 new code and refactoring for 'copy Chimera...
2016-11-14 gmungocJAL-2296 parse Chimera atomspec to AtomSpec
2016-11-14 gmungocJAL-2295 JAL-2296 skeleton 'attributes to features...
2016-11-08 gmungocJAL-2295 method added to return a compact mapped range...
2016-11-04 tcofoegbuJAL-2195 JAL-2262 house keeping
2016-10-28 Jim ProcterJAL-966 JAL-1738 JAL-345 interfaces for SearchResults...
2016-10-25 Jim ProcterJAL-2089 patch broken merge to master for Release 2... releases/Release_2_10_0_Branch
2016-10-24 Jim ProcterMerge branch 'releases/Release_2_10_0_Branch'
2016-10-17 tcofoegbuJAL-2262 JAL-2195 Improvement to set PDBId availability...
2016-10-10 tcofoegbuJAL-2262 JAL-2195 bug fix for mapping local structure...
2016-10-06 Jim ProcterJAL-2089 Merge branch releases/Release_2_10_Branch...
2016-10-05 Jim ProcterJAL-2189 apply license
2016-10-05 Jim ProcterJAL-2189 source formatting
2016-09-19 tcofoegbumerge
2016-09-16 gmungocJAL-2164 removed unused parameters from JmolParser...
2016-09-13 tcofoegbuRevert "JAL-2164 JAL-1919 disabled and removed PDB...
2016-09-13 tcofoegbuJAL-2164 JAL-1919 disabled and removed PDB file parser...
2016-09-07 Jim ProcterJAL-1803 transfer mapped chain’s PDBEntry to the *datas...
2016-08-30 gmungocMerge branch 'develop' into features/filetypeEnum
2016-08-24 Jim ProcterJAL-2106 javadoc for sifts mapping method
2016-08-24 Jim ProcterJAL-2106 prevent SIFTS mappings for sequences that...
2016-07-26 Jim ProcterJAL-2157 todo: verify parser/file format enums and...
2016-07-26 tcofoegbuJAL-2157 bugfix for issues from enum refactoring
2016-07-22 tcofoegbuJAL-2148 Bugfix in structureImportSettings string-to...
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