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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / src / jalview / ext /
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply tree | commitdiff
2023-11-02 James ProcterMerge branch 'develop' into patch/JAL-3921_jmol_session... tree | commitdiff
2023-10-20 James ProcterJAL-4307 also report molecule name in tooltip for show... feature/JAL-4307_hetatm_showhide tree | commitdiff
2023-10-20 James ProcterJAL-4307 some models return null for hetatm list tree | commitdiff
2023-10-19 James ProcterJAL-4307 View->Ligands submenu, implementation for... tree | commitdiff
2023-10-13 James ProcterJAL-4295 concatenate all mouseover highlights into... tree | commitdiff
2023-09-20 James ProcterJAL-4265 JAL-4267 added a ‘restoreSession’ StructureVie... tree | commitdiff
2023-09-20 James ProcterJAL-4265 back out redundant ‘saveState’ and ‘restoreSta... tree | commitdiff
2023-09-20 Ben SoaresJAL-4265 Added saveState and restoreState to interface... tree | commitdiff
2023-09-19 Ben SoaresJAL-4265 Change to use JmolCommands tree | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... tree | commitdiff
2023-06-30 James ProcterJAL-4216 compute size of annotation using start/end... tree | commitdiff
2023-06-29 James ProcterJAL-4216 compute size of annotation using start/end... tree | commitdiff
2023-05-19 James ProcterMerge branch 'develop' into features/JAL-4134_use_annot... tree | commitdiff
2023-05-01 James ProcterJAL-3858 report errors when trying to parse JSON to... tree | commitdiff
2023-04-19 Ben SoaresJAL-629 Now showing temp fac and secondary structure... tree | commitdiff
2023-03-25 Ben SoaresJAL-629 improvements to argparser toString. Improvement... tree | commitdiff
2023-03-17 Jim ProcterJAL-3921 allow Jmol saveState to be executed as evalScr... patch/JAL-3921_jmol_session_save tree | commitdiff
2023-03-02 Ben SoaresJAL-629 Removal of unnecessary methods. Set pLTTD tempf... tree | commitdiff
2023-03-02 Ben SoaresJAL-629 Some refactoring to allow more flexible use... tree | commitdiff
2023-02-22 Ben SoaresMerge branch 'develop' into features/r2_11_2_alphafold... tree | commitdiff
2023-02-16 James ProcterMerge branch 'features/r2_11_2_alphafold/JAL-629' into... tree | commitdiff
2023-02-03 James ProcterJAL-1551 remove temp file in src tree | commitdiff
2023-01-24 James ProcterJAL-629 need to delay call to AlignFile.parse() if... tree | commitdiff
2023-01-11 Ben SoaresJAL-629 refactoring TFType. Remove i18n identification... tree | commitdiff
2022-12-05 Ben SoaresJAL-629 implementation of --tempfac options tree | commitdiff
2022-10-28 Jim ProcterJAL-4086 commented out attempt to create measurement... tree | commitdiff
2022-10-28 Jim ProcterJAL-2961 centerViewOn command for structure viewers... tree | commitdiff
2022-10-27 Ben SoaresJAL-4083 don't need globalUseScriptWait after all,... bug/JAL-4083_exceptions_for_multiple_residue_highlights_in_jmol tree | commitdiff
2022-10-27 Ben SoaresJAL-4083 only set globalUseScriptWait if needed tree | commitdiff
2022-10-27 Ben SoaresJAL-4083 Use jmolViewer.scriptWait instead of jmolViewe... tree | commitdiff
2022-10-17 Jim ProcterJAL-2349 JAL-3855 Integrate pAE retrieval in StructureF... tree | commitdiff
2022-10-15 Jim ProcterJAL-3855 import pAE when StructureSelectionManager... tree | commitdiff
2022-10-14 Jim ProcterMerge branch 'features/JAL-3895_alphafoldcolours' into... tree | commitdiff
2022-10-07 Jim ProcterFix for JAL-4075 - don’t write a label in secondary... tree | commitdiff
2022-10-06 Jim ProcterJAL-1551 formatting tree | commitdiff
2022-10-06 Jim ProcterJAL-3895 alphafold colours via pluggable annotation... tree | commitdiff
2022-06-10 Jim ProcterMerge branch 'features/r2_11_2_alphafold/JAL-2349_JAL... tree | commitdiff
2022-06-07 Ben SoaresJAL-4020 class formatting tree | commitdiff
2022-06-07 Ben SoaresJAL-4020 added the \Scripts\pymol.exe. to the pathList tree | commitdiff
2022-06-06 Ben SoaresJAL-4020 Added the +2 arg for PyMOLWin.exe allowing... tree | commitdiff
2022-06-06 Ben SoaresJAL-4020 class reformatting tree | commitdiff
2022-06-06 Ben SoaresJAL-4020 Added path search for global installation... tree | commitdiff
2022-06-06 Ben SoaresJAL-4020 Added search for PyMOLWinWithConsole.bat ... tree | commitdiff
2022-03-08 Jim ProcterJAL-3746 apply copyright to source tree | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 tree | commitdiff
2022-03-08 Jim ProcterJAL-3108 updated Ensembl client and model species names tree | commitdiff
2022-03-02 Jim ProcterJAL-3619 fix up error messages and try to bail quietly... tree | commitdiff
2022-02-16 Jim ProcterJAL-3551 - wrap pair_fit with undo_disable and undo_enable tree | commitdiff
2022-02-16 Jim ProcterJAL-3949 report Pymol XMLRPC port via log.info tree | commitdiff
2022-02-16 Jim ProcterMerge branch 'develop' into features/r2_11_2_alphafold... tree | commitdiff
2022-02-15 Jim ProcterJAL-1761 backbone type parameter for configuring which... tree | commitdiff
2022-02-15 Jim ProcterJAL-1761 need to pass molecule type when generating... tree | commitdiff
2022-02-14 Jim ProcterJAL-3551 tree | commitdiff
2022-02-11 Jim ProcterJAL-3949 - refactor logging from jalview.bin.Cache... tree | commitdiff
2022-02-11 Ben SoaresJAL-3949 Complete new abstracted logging framework... tree | commitdiff
2021-12-08 Jim ProcterJAL-3551 JAL-3931 view pymol commands/responses in... tree | commitdiff
2021-10-18 Jim ProcterJAL-3905 Fix: wait for response when sending mouseovers... bug/r2_11_2/JAL-3904_structureviewermenu tree | commitdiff
2021-09-21 Ben SoaresJAL-3691 automatic insertion of Locale.ROOT to toUpperC... tree | commitdiff
2021-09-20 Jim ProcterJAL-3829 make sure structure data type reflects actual... tree | commitdiff
2021-09-15 Ben SoaresJAL-3818 formatting tree | commitdiff
2021-09-15 gmungocJAL-3818 process Jmol callbacks in AWT thread tree | commitdiff
2021-09-14 Jim ProcterJAL-3855 detect an alphafold model and import its tempe... tree | commitdiff
2021-09-13 Ben SoaresMerge branch 'develop' into feature/JAL-2422ChimeraX tree | commitdiff
2021-09-02 gmungocJAL-1842 adjust code to match changed semantics of... tree | commitdiff
2021-09-02 gmungocJAL-1842 remove redundant call to FeatureRenderer.featu... tree | commitdiff
2021-09-02 gmungocJAL-3509 better placement of call to notifyFeaturesChan... tree | commitdiff
2021-09-02 gmungocJAL-3509 coerce RESNUM to hidden (really) after fetchin... tree | commitdiff
2021-08-11 Jim ProcterMerge branch 'features/JAL-2349_matrixvis' into feature... tree | commitdiff
2021-02-11 gmungocJAL-3818 process Jmol callbacks in AWT thread bug/JAL-3818_jmolDeadlock tree | commitdiff
2021-02-04 gmungocJAL-2422 a fix and a fudge for two failing ChimeraX... tree | commitdiff
2020-09-10 gmungocJAL-3518 removed unneeded override in ChimeraCommands tree | commitdiff
2020-09-10 gmungocJAL-2422 comments updated re ALTLOC handling tree | commitdiff
2020-08-31 gmungocJAL-3018 Ensembl reviewed REST version updated to 13.0 tree | commitdiff
2020-08-31 gmungocJAL-1191 use Cache.log for logging tree | commitdiff
2020-08-31 gmungocJAL-1191 reduce logging level for warnings tree | commitdiff
2020-08-24 gmungocJAL-3018 updated reviewed REST version to 12.0 tree | commitdiff
2020-07-31 Ben SoaresMerge branch 'releases/Release_2_11_1_Branch' into... tree | commitdiff
2020-06-29 gmungocJAL-3674 more finessed asynchronous structure commands tree | commitdiff
2020-06-29 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2020-06-28 gmungocJAL-3551 PyMOL command constants tidied tree | commitdiff
2020-06-28 gmungocJAL-3551 fit to window (zoom) command for PyMOL tree | commitdiff
2020-06-26 Jim ProcterJAL-3518 fix highlighting in Jalview for selections... tree | commitdiff
2020-06-26 Jim ProcterJAL-3672 more efficient when debug not enabled tree | commitdiff
2020-06-25 gmungocJAL-2010 unused prototype method removed tree | commitdiff
2020-06-25 gmungocJAL-3518 pull up [get|list]ResidueAttributes to Structu... tree | commitdiff
2020-06-23 gmungocJAL-3518 separation of ChimeraXManager, pull up of... tree | commitdiff
2020-06-23 gmungocJAL-3518 pull up closeViewer() and external viewer... tree | commitdiff
2020-06-01 gmungocJAL-3518 more test coverage for structure commands tree | commitdiff
2020-05-29 gmungocJAL-3551 null pointer defence while structure files... feature/JAL-3551Pymol tree | commitdiff
2020-05-28 gmungocJAL-3551 corrected Pymol open session command tree | commitdiff
2020-05-28 gmungocJAL-2422 correct ChimeraX save/open session commands... tree | commitdiff
2020-05-26 gmungocJAL-1761 pattern for structure viewer construction... tree | commitdiff
2020-05-21 gmungocJAL-3551 copy Jalview features to Pymol 'p' (with pull... tree | commitdiff
2020-05-20 gmungocJAL-3626 use Viewer.scriptWait() to send Jmol commands... tree | commitdiff
2020-05-19 gmungocMerge branch 'develop' into feature/JAL-3551Pymol tree | commitdiff
2020-05-18 gmungocMerge branch 'Jalview-JS/develop' into develop tree | commitdiff
2020-05-15 gmungocJAL-3551 pull up Close Viewer dialog to base class tree | commitdiff
2020-05-12 gmungocJAL-3518 tidy method, remove obsolete comment tree | commitdiff
2020-05-12 gmungocJAL-3518 failsafe check for null Jmol filename while... tree | commitdiff
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