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JAL-3949 fixed failing commandlinetests due to more output and line count limit
[jalview.git] / src / jalview / ext /
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
2021-02-04 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
2020-06-29 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
2020-05-11 gmungocJAL-3551 concatenate colour by sequence commands for... tree | commitdiff
2020-05-11 gmungocJAL-2422 JAL-3551 viewer text/variables generalised... tree | commitdiff
2020-05-11 gmungocJAL-2422 restore saved ChimeraX session from project tree | commitdiff
2020-04-30 gmungocJAL-3551 save structure viewer session refactorings... tree | commitdiff
2020-04-30 gmungocJAL-3551 tidied error handling for HTTP request tree | commitdiff
2020-04-25 gmungocMerge branch 'develop' into feature/JAL-3551Pymol tree | commitdiff
2020-04-21 Jim ProcterJAL-3407 add GPL license to Jalview source files tree | commitdiff
2020-03-31 gmungocJAL-3210 JAL-3130 merge changes to JSON processing tree | commitdiff
2020-03-30 gmungocJAL-3210 debug logging commented out tree | commitdiff
2020-03-30 gmungocMerge branch 'develop' into Jalview-JS/develop tree | commitdiff
2020-03-16 gmungocJAL-3551 tidying, improved commands, fix Jmol model... tree | commitdiff
2020-03-16 gmungocJAL-3551 the correct PyMOL colour by chain command tree | commitdiff
2020-03-13 gmungocJAL-3551 working proof of concept of Jalview driving... tree | commitdiff
2020-03-09 gmungocMerge branch 'develop' into feature/JAL-2422ChimeraX tree | commitdiff
2020-03-03 gmungocJAL-3158 superseded superposeStructures methods removed tree | commitdiff
2020-03-03 gmungocJAL-3518 more pull up / test coverage of structure... tree | commitdiff
2020-02-29 gmungocJAL-3518 correct override for ChimeraX colour by residues tree | commitdiff
2020-02-28 gmungocJAL-3518 basic refactoring / pull up of superposeStruct... tree | commitdiff
2020-02-21 gmungocJAL-3518 more extraction of ChimeraX commands as overrides tree | commitdiff
2020-02-21 gmungocJAL-2422 tidy of methods and parameters tree | commitdiff
2020-02-21 gmungocJAL-2422 general pull-up/removal of common or unused... tree | commitdiff
2020-02-20 gmungocJAL-2422 pull-up refactoring of structure commands... tree | commitdiff
2020-02-04 gmungocJAL-2422 pull up refactoring in preparation for Chimera... tree | commitdiff
2020-01-31 gmungocJAL-2422 temporary hacks removed; use hex colours for... tree | commitdiff
2020-01-30 gmungocJAL-2422 save/restore ChimeraX session tree | commitdiff
2020-01-28 gmungocJAL-2422 ChimeraX added to Preferences tree | commitdiff
2020-01-14 gmungocJAL-2422 proof of concept adaptations for ChimeraX... tree | commitdiff
2019-12-13 gmungocJAL-2422 'label' command to highlight ChimeraX residue... tree | commitdiff
2019-12-13 gmungocJAL-2422 write Jalview features to ChimeraX via command... tree | commitdiff
2019-12-13 gmungocJAL-2422 basic proof of concept of ChimeraX opened... tree | commitdiff
2019-10-08 gmungocMerge branch 'develop' into Jalview-JS/develop tree | commitdiff
2019-08-22 gmungocJAL-3121 round trip GFF attributes including map-valued... tree | commitdiff
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge tree | commitdiff
2019-07-05 gmungocJAL-3187 initial refactoring towards peptide variant... tree | commitdiff
2019-06-14 gmungocJAL-3302 transfer visible 'linked' features to Chimera tree | commitdiff
2019-06-11 gmungocMerge branch 'develop' into feature/JAL-3187linkedFeatures tree | commitdiff
2019-06-11 gmungocJAL-3143 also parse "phase" from JSON response if present tree | commitdiff
2019-06-07 gmungocMerge branch 'develop' into feature/JAL-3187linkedFeatures tree | commitdiff
2019-06-07 gmungocJAL-2738 use GeneLocus extends DBRefEntry to hold chrom... tree | commitdiff
2019-06-06 gmungocMerge branch 'develop' into trialMerge tree | commitdiff
2019-05-31 Ben SoaresJAL-3247 Adjusted Uninstall Old Jalview.app to just... tree | commitdiff
2019-05-29 gmungocJAL-2738 accept .csi, default to GRCh37:homo_sapiens... tree | commitdiff
2019-05-06 gmungocJAL-3244 delete obsolete method tree | commitdiff
2019-04-26 gmungocJAL-2743 class Javadoc tree | commitdiff
2019-04-23 Jim ProcterMerge branch 'develop' into bug/JAL-3224_getdown_change... tree | commitdiff
2019-04-18 gmungocMerge branch 'develop' into Jalview-JS/develop tree | commitdiff
2019-04-18 gmungocJAL-3193 dbSource always "ENSEMBL" tree | commitdiff
2019-04-16 hansonrlocalizes Thread colourby so that it does not cause... tree | commitdiff
2019-04-15 gmungocMerge branch 'develop' into Jalview-JS/develop tree | commitdiff
2019-04-11 Jim ProcterMerge branch 'develop' into task/JAL-3130_Java_11_inves... tree | commitdiff
2019-04-10 gmungocJAL-3193 rest.ensemblgenomes.org merged to rest.ensembl.org tree | commitdiff
2019-04-10 gmungocJAL-3018 REST version updated to 10.0 tree | commitdiff
2019-04-04 Ben SoaresJAL-3130 trying to be Java 1.8 source compatible -... tree | commitdiff
2019-04-03 hansonrreplacing @j2sNative with @j2sIgnore where appropriate... tree | commitdiff
2019-04-01 gmungocJAL-3032 use small example Ensembl gene for JalviewJS tree | commitdiff
2019-04-01 hansonrJSON refactoring of a few methods; fixing JavaScript... tree | commitdiff
2019-03-21 Ben SoaresJAL-3130 Replaced deprecated Class.newInstance() with... tree | commitdiff
2019-03-20 Ben SoaresJAL-3130 Lots of deprecation fixes. See utils/deprecat... tree | commitdiff
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