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jalview.git
2017-05-22 gmungocJAL-2505 use setter not direct access to sf.description commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2505 updates after conflicting merge of JAL-2504 commit | commitdiff | tree | snapshot
2017-05-22 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2504 update the right feature colour when creating... bug/JAL-2510amendFeatures commit | commitdiff | tree | snapshot
2017-05-22 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2544 unit tests for sort by feature score commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2544 check feature overlaps selection region commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2543 identify as JSON before HTML commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2546 JAL-2490 efficient lookup of features, correct... commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2490 add non-positional feature case to test prior... commit | commitdiff | tree | snapshot
2017-05-22 gmungocJAL-2480 always include all non-positional features... commit | commitdiff | tree | snapshot
2017-05-22 kiramtMerge remote-tracking branch 'origin/bug/JAL-2256'... commit | commitdiff | tree | snapshot
2017-05-22 Jim ProcterJAL-2418 patch build - broken htsjdk import commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2526 removed redundant call to Sequence.findPosition() commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2490 refactored test for 'hasFeatures' commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2544 only include features in selected columns... commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2490 performant lookup of features for sorting commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2490 only count sequences where feature overlap... commit | commitdiff | tree | snapshot
2017-05-19 gmungocJAL-2505 unit test for sort by feature density, Javadoc commit | commitdiff | tree | snapshot
2017-05-18 gmungocJAL-2490 initial unit tests prior to refactoring commit | commitdiff | tree | snapshot
2017-05-18 Jim ProcterMerge branch 'bug/JAL-2388_typeCheckAlignView.getUpdate... commit | commitdiff | tree | snapshot
2017-05-18 Jim ProcterJAL-2388 return empty hidden columns for fully visible... commit | commitdiff | tree | snapshot
2017-05-18 gmungocJAL-2490 lookup sequence features for "labelClass" commit | commitdiff | tree | snapshot
2017-05-18 gmungocJAL-2490 lookup features at each column position commit | commitdiff | tree | snapshot
2017-05-18 gmungocJAL-2543 html-encode quote characters in feature descri... commit | commitdiff | tree | snapshot
2017-05-18 gmungocJAL-2490 retrieve visible features only commit | commitdiff | tree | snapshot
2017-05-18 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-18 kiramtJAL-2256 Corrected AllCols/Rows iterator behaviour... bug/JAL-2256 commit | commitdiff | tree | snapshot
2017-05-18 Jim ProcterJAL-2418 remove explicit test suite stats commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterMerge branch 'develop' into documentation/JAL-2418_rele... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterMerge branch 'bug/JAL-2510amendFeatures' into develop commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterJAL-2447 add links to issues.jalview.org for experiment... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterMerge branch 'documentation/JAL-2418_release2102' into... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterJAL-2447 experimental section in ‘Whats New’ commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterJAL-2447 JAL-2295 JAL-2296 documenting as experimental... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterMerge branch 'develop' into documentation/JAL-2418_rele... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterMerge branch 'features/JAL-2447experimentalFlag' into... commit | commitdiff | tree | snapshot
2017-05-17 Jim ProcterJAL-2418 release notes commit | commitdiff | tree | snapshot
2017-05-17 gmungocJAL-2504 use (and update) defaults for new feature... commit | commitdiff | tree | snapshot
2017-05-17 gmungocMerge branch 'develop' into bug/JAL-2510amendFeatures commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterMerge branch 'documentation/JAL-2418_release2102' into... commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-2418 release notes commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-384 documentation on custom colours groovy examples commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 unreachable code (for many years) removed commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-384 - groovy scripts for conserved/unconserved... commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-2418 release notes commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 refactored method removed commit | commitdiff | tree | snapshot
2017-05-16 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 set helix number as feature group in SequenceF... commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-2418 JAL-2316 added to new features commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-2316 tweaking docs and links in help commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterJAL-2418 release 2.10.2 release notes template commit | commitdiff | tree | snapshot
2017-05-16 Jim Procteralternative patch for JAL-2339 readability in java... commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2403 simplify instantiation / configuration of... commit | commitdiff | tree | snapshot
2017-05-16 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-16 kiramtJAL-2522 Missed fix to applet commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 refactor to set type and group in SequenceFeat... commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2525 put in missing "transcript" feature type commit | commitdiff | tree | snapshot
2017-05-16 kiramtJAL-2388 Rationalised hashCode method in HiddenColumns commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 additional tests/asserts prior to refactoring commit | commitdiff | tree | snapshot
2017-05-16 Jim ProcterMerge branch 'bug/JAL-2507_rnasecstrstockholm' into... commit | commitdiff | tree | snapshot
2017-05-16 gmungocJAL-2505 set SequenceFeature group in constructor commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2507 fix test: knockon from capitalisation on secon... bug/JAL-2507_rnasecstrstockholm commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterMerge branch 'bug/JAL-2507_rnasecstrstockholm' into... commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2311 disable and relocate Jared service tests to... commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2507 capitalisation for annotation lines generated... commit | commitdiff | tree | snapshot
2017-05-15 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2507 case insensitive recognition of annotation... commit | commitdiff | tree | snapshot
2017-05-15 gmungocJAL-2532 new feature types and colour changes from... commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2507 - required callers to specify exact ignore... commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2535 quick hack to implement posterior probabilitie... commit | commitdiff | tree | snapshot
2017-05-15 kiramtMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2017-05-15 kiramtJAL-2388 Add missed optimisation commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterMerge branch 'features/JAL-2376_add-horizontal-bar... commit | commitdiff | tree | snapshot
2017-05-15 Jim ProcterJAL-2371 create a default ResidueShader when constructi... commit | commitdiff | tree | snapshot
2017-05-15 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff | tree | snapshot
2017-05-15 gmungocJAL-2490 use findFeatures() for efficient feature overl... commit | commitdiff | tree | snapshot
2017-05-15 gmungocJAL-2480 redundant code (from merge?) removed commit | commitdiff | tree | snapshot
2017-05-15 gmungocJAL-2480 redundant code removed commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2490 performant findFeaturesAtRes commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2483 efficient lookup of feature types and groups... commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2525 get sequence features for Ontology term(s... commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2480 more efficient contains check on add; tidied... commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2480 java.util.RangeComparator renamed IntRangeComp... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterMerge branch 'features/JAL-2435splitScreenFont' into... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2418 broken help ref commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2435 documentation and what’s new commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2435 mention new checkbox in linked cDNA/Protein... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2435 mirror antiAlias setting between cDNA and... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterMerge branch 'features/JAL-2388OverviewWindow' into... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2388 mention overview popup in documentation commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2388 checkbox in overview popup for applet commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2480 efficient test for features present on sequence commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterMerge branch 'features/JAL-2228_efficient_featurecounts... commit | commitdiff | tree | snapshot
2017-05-12 Jim ProcterJAL-2228 updated script in help docs, renamed docs... commit | commitdiff | tree | snapshot
2017-05-12 gmungocJAL-2480 renamed java.util.RangeComparator to IntRangeC... commit | commitdiff | tree | snapshot
2017-05-11 Jim ProcterMerge branch 'bug/JAL-2507_rnasecstrstockholm' into... commit | commitdiff | tree | snapshot
2017-05-11 Jim ProcterJAL-2509 JAL-2507 allow whitespace in GS annotation... commit | commitdiff | tree | snapshot
2017-05-11 Jim ProcterJAL-2507 JAL-2509 allow whitespace==null for annotation... commit | commitdiff | tree | snapshot
2017-05-11 Jim ProcterJAL-2507 test if an annotation is ‘whitespace’ commit | commitdiff | tree | snapshot
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