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JAL-4059 Converting Pattern/Matcher methods that are possibly incompatible with JS...
[jalview.git]
/
src
/
jalview
/
structure
/
2023-10-03
James Procter
Merge branch 'patch/JAL-4062_sort_and_merge_contiguousr...
tree
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commitdiff
2023-09-20
James Procter
JAL-4265 JAL-4267 added a ‘restoreSession’ StructureVie...
tree
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commitdiff
2023-09-20
James Procter
JAL-4265 back out redundant ‘saveState’ and ‘restoreSta...
tree
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commitdiff
2023-09-20
Ben Soares
JAL-4265 Added saveState and restoreState to interface...
tree
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commitdiff
2023-09-06
James Procter
JAL-629 javadoc on new setMapping variant for structure...
tree
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commitdiff
2023-08-21
James Procter
JAL-4062 appendResult(seq,start,end) called by structur...
tree
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commitdiff
2023-08-10
Ben Soares
JAL-629 Change all stdout and stderr output to use...
tree
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commitdiff
2023-05-22
James Procter
JAL-629 javadoc on StructureSelectionManager.computeMapping
tree
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commitdiff
2023-04-19
Ben Soares
JAL-629 Now showing temp fac and secondary structure...
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Removal of unnecessary methods. Set pLTTD tempf...
tree
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commitdiff
2023-03-02
Ben Soares
JAL-629 Some refactoring to allow more flexible use...
tree
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commitdiff
2023-02-24
Ben Soares
JAL-629 add widgets to StructureChooser for tempfac...
tree
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commitdiff
2023-02-03
James Procter
JAL-1551 remove temp file in src
tree
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commitdiff
2023-01-23
Ben Soares
JAL-629 Attempts to add PAE to structure. --headless...
tree
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commitdiff
2023-01-11
Ben Soares
JAL-629 refactoring TFType. Remove i18n identification...
tree
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commitdiff
2022-10-28
Jim Procter
JAL-2961 centerViewOn command for structure viewers...
tree
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commitdiff
2022-10-26
Jim Procter
JAL-4086 quick and dirty mouseovers on ruler highlighti...
tree
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commitdiff
2022-10-22
Jim Procter
JAL-2349 JAL-3855 highlight residues associated with...
tree
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commitdiff
2022-06-10
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3746 apply copyright to source
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
tree
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commitdiff
2022-02-16
Jim Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 backbone type parameter for configuring which...
tree
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commitdiff
2022-02-15
Jim Procter
JAL-1761 need to pass molecule type when generating...
tree
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commitdiff
2022-02-11
Jim Procter
JAL-3949 - refactor logging from jalview.bin.Cache...
tree
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commitdiff
2022-02-11
Ben Soares
JAL-3949 Complete new abstracted logging framework...
tree
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commitdiff
2021-12-13
Jim Procter
JAL-3929 preserve lowercase pdbid in group name for...
tree
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commitdiff
2021-12-08
Jim Procter
JAL-3929 don’t use the url encoded pdbId in feature...
tree
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commitdiff
2021-11-08
Jim Procter
JAL-3855 try harder to ignore DNA/RNA only structures...
tree
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commitdiff
2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
tree
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commitdiff
2021-09-08
Jim Procter
JAL-3829 JAL-3868 TODO
tree
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commitdiff
2021-08-13
Jim Procter
Merge branch 'feature/JAL-3855_ebi_alphafold_import...
tree
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commitdiff
2021-08-11
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into feature...
tree
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commitdiff
2021-07-27
Jim Procter
JAL-3855 suppress NPE when trying to retrieve SIFTS...
tree
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commitdiff
2020-09-10
gmungoc
JAL-3518 removed unneeded override in ChimeraCommands
tree
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commitdiff
2020-06-25
gmungoc
JAL-3518 pull up [get|list]ResidueAttributes to Structu...
tree
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commitdiff
2020-06-23
gmungoc
JAL-3518 separation of ChimeraXManager, pull up of...
tree
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commitdiff
2020-06-23
gmungoc
JAL-3518 pull up closeViewer() and external viewer...
tree
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commitdiff
2020-06-01
gmungoc
JAL-3518 more test coverage for structure commands
tree
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commitdiff
2020-05-29
gmungoc
Merge branch 'feature/JAL-3551Pymol' into develop
tree
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commitdiff
2020-05-26
gmungoc
JAL-3624 log when SIFTS mapping fails
tree
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commitdiff
2020-05-26
gmungoc
JAL-1761 pattern for structure viewer construction...
tree
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commitdiff
2020-05-21
gmungoc
JAL-3551 copy Jalview features to Pymol 'p' (with pull...
tree
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commitdiff
2020-05-19
gmungoc
Merge branch 'develop' into feature/JAL-3551Pymol
tree
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commitdiff
2020-05-11
gmungoc
JAL-3551 concatenate colour by sequence commands for...
tree
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commitdiff
2020-03-16
gmungoc
JAL-3551 tidying, improved commands, fix Jmol model...
tree
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commitdiff
2020-03-13
gmungoc
JAL-3551 working proof of concept of Jalview driving...
tree
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commitdiff
2020-03-03
gmungoc
JAL-3518 more pull up / test coverage of structure...
tree
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commitdiff
2020-02-28
gmungoc
JAL-3518 basic refactoring / pull up of superposeStruct...
tree
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commitdiff
2020-02-21
gmungoc
JAL-3518 more extraction of ChimeraX commands as overrides
tree
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commitdiff
2020-02-20
gmungoc
JAL-2422 pull-up refactoring of structure commands...
tree
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commitdiff
2020-01-14
gmungoc
JAL-2422 proof of concept adaptations for ChimeraX...
tree
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commitdiff
2019-10-08
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-07-16
gmungoc
JAL-3210 Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-06-18
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into merge...
tree
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commitdiff
2019-06-06
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-05-01
gmungoc
JAL-3244 ignore file path separator when comparing...
tree
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commitdiff
2019-03-21
Ben Soares
JAL-3130 Replaced deprecated Class.newInstance() with...
tree
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commitdiff
2019-02-19
gmungoc
JAL-3187 hacks to get peptide variant in to Jmol hover...
tree
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commitdiff
2018-08-21
hansonr
mc_view references were MCview
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 use configured values for structure derived...
tree
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commitdiff
2018-05-07
Jim Procter
JAL-2321 add secondary structure & temp factor if not...
tree
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commitdiff
2018-04-13
gmungoc
Merge branch 'features/JAL-2944_openStructuresInSelecte...
features/JAL-2944_openStructuresInSelectedView
tree
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commitdiff
2018-04-12
gmungoc
JAL-2223 don't add duplicate mappings to StructureSelec...
tree
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commitdiff
2018-04-12
gmungoc
JAL-2944 tidies for review comments
tree
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commitdiff
2018-04-11
Jim Procter
JAL-2946 catch unexpected SIFTS mapping exceptions...
tree
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commitdiff
2018-02-13
Jim Procter
JAL-2781 null local siftsClient variable if exception...
tree
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commitdiff
2018-02-13
Jim Procter
JAL-2781 refactor StructureSelectionManager.siftsClient...
tree
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commitdiff
2018-02-13
Jim Procter
JAL-2781 FIXME: value of sourceType parameter always...
tree
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commitdiff
2018-02-13
Jim Procter
JAL-2781 refactor possibly non-functional ‘extract...
tree
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commitdiff
2018-02-13
Jim Procter
JAL-2781 tidy up comments on getMapping/computeMapping
tree
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commitdiff
2018-02-11
Jim Procter
JAL-2781 use SIFTs mapping rather than maxChain AlignSe...
tree
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commitdiff
2018-02-11
Jim Procter
JAL-2781 mark aligned positions via StructureMapping...
tree
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commitdiff
2018-02-11
Jim Procter
JAL-2780 JAL-2781 UNASSIGNED positions marked as Intege...
tree
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commitdiff
2018-02-07
Jim Procter
JAL-2780 JAL-2781 fix javadoc in line with behaviour...
tree
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commitdiff
2017-10-27
gmungoc
JAL-1793 spike branch updated to latest
tree
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commitdiff
2017-10-25
Jim Procter
Merge branch 'bug/JAL-2392_deadlockonpdbdisplay' into...
tree
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commitdiff
2017-10-24
gmungoc
JAL-2495 highlight all mapped sequences from structure...
tree
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commitdiff
2017-10-10
Jim Procter
Merge branch 'codereviews/JAL-1990_IProgressIndicator_j...
tree
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commitdiff
2017-10-03
gmungoc
JAL-2738 copy to spikes/mungo
tree
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commitdiff
2017-08-27
Jim Procter
JAL-2693 TODO comments
tree
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commitdiff
2017-08-16
Jim Procter
JAL-2418 source formatting
tree
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commitdiff
2017-06-09
gmungoc
JAL-2446 merged to spike branch
tree
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commitdiff
2017-06-09
Jim Procter
Merge branch 'develop' into features/JAL-2349_matrixvis
tree
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commitdiff
2017-05-29
Jim Procter
Merge branch 'features/JAL-2465_No-mapping_Jmol-structu...
tree
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commitdiff
2017-05-09
tcofoegbu
JAL-2465 fix to dynamically specify data source type...
tree
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commitdiff
2017-05-08
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
features/JAL-2388hiddencolumnschanges
tree
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commitdiff
2017-05-01
tcofoegbu
JAL-2465 bugfix and rerefactor renamed getPdbFile(...
tree
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commitdiff
2017-04-24
kiramt
JAL-2388 Hidden cols separated from column selection...
tree
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commitdiff
2017-03-23
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-03-08
gmungoc
JAL-2430 colour columns hidden in alignment gray on...
tree
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commitdiff
2017-03-07
gmungoc
JAL-2295 status messages for Chimera attributes set...
tree
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commitdiff
2017-02-13
gmungoc
JAL-1632 JAL-2416 load score matrices from file, as...
tree
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commitdiff
2016-12-08
gmungoc
Merge branch 'bug/JAL-2358phantomChimera' into spikes...
tree
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commitdiff
2016-12-08
gmungoc
JAL-2358 ensure mappings removed on close Chimera;...
bug/JAL-2358phantomChimera
tree
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commitdiff
2016-11-29
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-25
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2016-11-23
gmungoc
Merge branch 'develop' into features/JAL-2295setChimera...
tree
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commitdiff
2016-11-22
Jim Procter
Merge branch 'features/JAL-1738_JAL-345_selectionfromhi...
tree
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commitdiff
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