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Merge branch 'doc/JAL-3746_Release_2_11_2' into develop
[jalview.git] / src /
2020-11-06 Ben SoaresJAL-3609 Added a -DforceHiDPISetting=true option mainly... tree | commitdiff
2020-11-05 Ben SoaresJAL-3608 cherry pick of 92cb745e7 tree | commitdiff
2020-10-28 Jim ProcterJAL-3760 refactor nucleotide proportion test to per... tree | commitdiff
2020-10-28 Jim Procterfix for JAL-3765 tree | commitdiff
2020-10-02 Jim ProcterJAL-3762 check for !args || args=="" before overwriting Jalview-JS/bug/JAL-3762_URLparamsOverrideInfoArg tree | commitdiff
2020-10-02 Jim ProcterJAL-3762 more typo fixing :q tree | commitdiff
2020-10-02 Jim ProcterJAL-3762 syntax error typo tree | commitdiff
2020-10-02 Jim ProcterJAL-3762 check if Info.args already defined before... tree | commitdiff
2020-09-21 Jim ProcterMerge branch 'merge_review/JAL-3490_2_11_2_develop... tree | commitdiff
2020-09-14 Ben SoaresMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2020-09-14 Ben SoaresMerge branch 'feature/JAL-3615gzipXfam' into develop tree | commitdiff
2020-09-14 Ben SoaresJAL-3609 HiDPI scale setting done via system prop in... 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
2020-09-03 gmungocJAL-3648 resize annotation panel after dragging to... tree | commitdiff
2020-09-03 Ben SoaresMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2020-08-31 Jim ProcterJAL-3732 - sequences can be moved up/down in cursor... 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
2020-08-21 Jim ProcterJAL-3615 code tidy, improve unit test tree | commitdiff
2020-08-20 Ben SoaresJAL-2656 better read of (potential) gzip magic bytes tree | commitdiff
2020-08-18 gmungocJAL-2656 Java 8 compatible test for gzipped, refactored... tree | commitdiff
2020-08-17 Jim ProcterJAL-3490 don't init the combo box's history cache for... tree | commitdiff
2020-08-17 Jim ProcterJAL-3490 merged with 2.11.2 develop tree | commitdiff
2020-08-17 Jim ProcterMerge branch 'task/JAL-3597memoryLeakTest' into develop tree | commitdiff
2020-08-12 Ben SoaresMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2020-08-12 Jim ProcterMerge branch 'task/JAL-3608_property_set_laf_and_tests... tree | commitdiff
2020-08-09 Ben SoaresJAL-3691 Changed .toUppoerCase().startsWith(...) to... tree | commitdiff
2020-08-05 gmungocJAL-3692 parse multiline feature qualifiers and escaped... tree | commitdiff
2020-08-04 Ben SoaresJAL-3477 Added -help text for jvmmempc and jvmmemmax... tree | commitdiff
2020-08-03 Jim ProcterMerge branch 'bug/JAL-2983negativeSliderMin' into develop tree | commitdiff
2020-07-29 Jim ProcterJAL-3371 JAL-2983 don't modify 'extent' of slider ... tree | commitdiff
2020-07-28 Jim ProcterMerge branch 'feature/JAL-3615gzipXfam' into develop tree | commitdiff
2020-07-28 Jim ProcterJAL-3615 JAL-2656 missing import after cherrypick tree | commitdiff
2020-07-28 Jim ProcterJAL-2656 recognise non-HTTP URI input streams as gzippe... tree | commitdiff
2020-07-28 Jim ProcterJAL-2656 recognise Gzipped file input streams by their... tree | commitdiff
2020-07-27 gmungocJAL-3692 set CDS /product as EMBLCDSPROTEIN description tree | commitdiff
2020-07-27 gmungocJAL-3692 refactor/complete parsing, more unit test... tree | commitdiff
2020-07-27 Jim ProcterJAL-3697 show total number of features not shown tree | commitdiff
2020-07-27 Jim ProcterJAL-3696 log the error message from the exception to... tree | commitdiff
2020-07-24 gmungocJAL-3692 parse DE for description, and other refactoring... tree | commitdiff
2020-07-22 gmungocJAL-3692 unit test (J03321), fixes, dbrefs; todo: prote... tree | commitdiff
2020-07-21 gmungocJAL-3692 EMBL flatfile fetcher / parser (todo: CDS... tree | commitdiff
2020-07-14 gmungocJAL-1421 last change tidied up properly tree | commitdiff
2020-07-14 gmungocJAL-1421 types added to nameHash and nodeHash maps tree | commitdiff
2020-07-14 gmungocJAL-3597 additional references nulled, bug in test... tree | commitdiff
2020-07-07 Ben SoaresJAL-3608 Changes from code review CR-JAL-236 tree | commitdiff
2020-07-07 gmungocJAL-1424 streamlined message checker, corrected applet... tree | commitdiff
2020-07-06 gmungocJAL-3311 JAL-3141 JAL-3144 tidying obsolete message... tree | commitdiff
2020-07-02 gmungocJAL-2656 JAL-3615 check response headers to test for... tree | commitdiff
2020-07-02 gmungocJAL-3615 used gzip endpoints for Pfam and Rfam tree | commitdiff
2020-06-29 Jim ProcterMerge branch 'develop' of source.jalview.org/git/jalvie... tree | commitdiff
2020-06-29 Jim ProcterJAL-3493 clear search highlights when escape/deselect all 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
2020-06-29 gmungocJAL-3518 corrected pulled up focusView() command tree | commitdiff
2020-06-29 gmungocJAL-3518 corrected action on pulled up closeViewer() 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-3673 make sure font metrics are updated if dealing... tree | commitdiff
2020-06-26 Jim ProcterJAL-3518 fix highlighting in Jalview for selections... tree | commitdiff
2020-06-26 Jim ProcterJAL-3672 debug=false means no debug output tree | commitdiff
2020-06-26 Jim ProcterJAL-3672 more efficient when debug not enabled tree | commitdiff
2020-06-26 Jim ProcterJAL-3671 hardwire log4j.root logger to INFO to supress... tree | commitdiff
2020-06-26 gmungocJAL-3518 tidy up asynchronous structure command execution 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-2422 test updated tree | commitdiff
2020-05-29 gmungocMerge branch 'feature/JAL-3551Pymol' into develop 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-3624 log when SIFTS mapping fails tree | commitdiff
2020-05-26 gmungocMerge branch 'feature/JAL-3624siftsInJS' into develop tree | commitdiff
2020-05-26 gmungocJAL-1761 pattern for structure viewer construction... tree | commitdiff
2020-05-24 Jim ProcterJAL-3407 redact Java 8 incompatible '<>' with anonymous... tree | commitdiff
2020-05-21 gmungocJAL-3551 copy Jalview features to Pymol 'p' (with pull... tree | commitdiff
2020-05-21 gmungocJAL-2422 highlight ChimeraX selection (ChimeraX-1.0... tree | commitdiff
2020-05-20 gmungocJAL-3626 use Viewer.scriptWait() to send Jmol commands... tree | commitdiff
2020-05-19 gmungocJAL-3621 corrected sequence feature sort and test tree | commitdiff
2020-05-19 gmungocMerge branch 'develop' into feature/JAL-3551Pymol tree | commitdiff
2020-05-19 gmungocJAL-3624 use temp file for SIFT download in JS, correct... feature/JAL-3624siftsInJS tree | commitdiff
2020-05-18 gmungocJAL-3463 avoid Thread.sleep() as not supported in SwingJS tree | commitdiff
2020-05-18 gmungocJAL-3621 update to intervalstore v1.1 tree | commitdiff
2020-05-18 gmungocMerge branch 'Jalview-JS/develop' into develop tree | commitdiff
2020-05-18 gmungocJAL-3613 remove debug code committed in error tree | commitdiff
2020-05-15 gmungocJAL-3619 default silently to Jmol if viewerType absent... tree | commitdiff
2020-05-15 gmungocJAL-3551 pull up Close Viewer dialog to base class tree | commitdiff
2020-05-15 gmungocMerge branch 'feature/JAL-3551Pymol' into feature/JAL... tree | commitdiff
2020-05-15 gmungocJAL-3551 raise label on ('highlight') structure residue... 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 ChimeraX paths (versions up to 1.0) added... tree | commitdiff
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