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2017-05-24	gmungoc	JAL-2505 remove setters for SequenceFeature.begin,end...	commit \| commitdiff \| tree
2017-05-24	gmungoc	JAL-2529 add object_type=cdna to EnsemblCdna parameters	commit \| commitdiff \| tree
2017-05-24	gmungoc	Merge branch 'bug/JAL-2541cutWithFeatures' into features...	commit \| commitdiff \| tree
2017-05-24	gmungoc	JAL-2505 JAL-2542 SequenceFeatures.shift() to shift...	commit \| commitdiff \| tree
2017-05-24	gmungoc	JAL-2542 correct adjustment of sequence features for...	commit \| commitdiff \| tree
2017-05-24	gmungoc	JAL-2505 delete and readd modified feature after Cut...	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2490 find features for export as GFF, JAL-2548...	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2490 test coverage for printGffFormat before refactoring	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2490 unit tests for getFeaturesForGroup	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2490 tidy code and tests for feature export in...	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2490 improved lookup of features for Export Features...	commit \| commitdiff \| tree
2017-05-23	gmungoc	JAL-2480 methods to get features for group	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2505 use setter not direct access to sf.description	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2505 updates after conflicting merge of JAL-2504	commit \| commitdiff \| tree
2017-05-22	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2504 update the right feature colour when creating...	commit \| commitdiff \| tree
2017-05-22	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2544 unit tests for sort by feature score	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2544 check feature overlaps selection region	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2543 identify as JSON before HTML	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2546 JAL-2490 efficient lookup of features, correct...	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2490 add non-positional feature case to test prior...	commit \| commitdiff \| tree
2017-05-22	gmungoc	JAL-2480 always include all non-positional features...	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2526 removed redundant call to Sequence.findPosition()	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2490 refactored test for 'hasFeatures'	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2544 only include features in selected columns...	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2490 performant lookup of features for sorting	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2490 only count sequences where feature overlap...	commit \| commitdiff \| tree
2017-05-19	gmungoc	JAL-2505 unit test for sort by feature density, Javadoc	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2490 initial unit tests prior to refactoring	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2490 lookup sequence features for "labelClass"	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2490 lookup features at each column position	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2543 html-encode quote characters in feature description	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2490 retrieve visible features only	commit \| commitdiff \| tree
2017-05-18	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2541 initial unit tests for edit cut relocate features	commit \| commitdiff \| tree
2017-05-18	gmungoc	JAL-2541 fix to initSeqFrom (and minor code tidy);...	commit \| commitdiff \| tree
2017-05-17	gmungoc	JAL-2504 use (and update) defaults for new feature...	commit \| commitdiff \| tree
2017-05-17	gmungoc	Merge branch 'develop' into bug/JAL-2510amendFeatures	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 unreachable code (for many years) removed	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 refactored method removed	commit \| commitdiff \| tree
2017-05-16	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 set helix number as feature group in SequenceFeature	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2403 simplify instantiation / configuration of...	commit \| commitdiff \| tree
2017-05-16	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 refactor to set type and group in SequenceFeature...	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2525 put in missing "transcript" feature type	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 additional tests/asserts prior to refactoring	commit \| commitdiff \| tree
2017-05-16	gmungoc	JAL-2505 set SequenceFeature group in constructor	commit \| commitdiff \| tree
2017-05-15	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-15	gmungoc	JAL-2532 new feature types and colour changes from...	commit \| commitdiff \| tree
2017-05-15	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-15	gmungoc	JAL-2490 use findFeatures() for efficient feature overlap...	commit \| commitdiff \| tree
2017-05-15	gmungoc	JAL-2480 redundant code (from merge?) removed	commit \| commitdiff \| tree
2017-05-15	gmungoc	JAL-2480 redundant code removed	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2490 performant findFeaturesAtRes	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2483 efficient lookup of feature types and groups...	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2525 get sequence features for Ontology term(s...	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2480 more efficient contains check on add; tidied...	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2480 java.util.RangeComparator renamed IntRangeComparator	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2480 efficient test for features present on sequence	commit \| commitdiff \| tree
2017-05-12	gmungoc	JAL-2480 renamed java.util.RangeComparator to IntRangeComparator	commit \| commitdiff \| tree
2017-05-09	gmungoc	JAL-1632 correct i18n and NPE	commit \| commitdiff \| tree
2017-05-09	gmungoc	JAL-2403 use preferred factory method to create score...	commit \| commitdiff \| tree
2017-05-09	gmungoc	JAL-2480 include sequenceFeatureStore in createDatasetSequence	commit \| commitdiff \| tree
2017-05-09	gmungoc	JAL-2483 JAL-2481 fixed findAllFeatures to handle null...	commit \| commitdiff \| tree
2017-05-09	gmungoc	JAL-2505 use constructors to set (what will be) final...	commit \| commitdiff \| tree
2017-05-08	gmungoc	JAL-2505 set type,desc,begin,end,group,score in SequenceFeature	commit \| commitdiff \| tree
2017-05-08	gmungoc	JAL-2505 refactored SequenceFeature construction so...	commit \| commitdiff \| tree
2017-05-08	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-08	gmungoc	JAL-1933 Spanish tooltips for annotation	commit \| commitdiff \| tree
2017-05-08	gmungoc	JAL-1632 i18n for warning messages	commit \| commitdiff \| tree
2017-05-08	gmungoc	Merge remote-tracking branch 'origin/bug/JAL-2515'...	commit \| commitdiff \| tree
2017-05-05	gmungoc	Merge branch 'develop' into features/JAL-2435splitScreenFont	commit \| commitdiff \| tree
2017-05-05	gmungoc	JAL-964 JAL-2510 update Feature Settings from Amend...	commit \| commitdiff \| tree
2017-05-04	gmungoc	JAL-2506 allow graduated colour as default in new Sequence...	commit \| commitdiff \| tree
2017-05-04	gmungoc	JAL-2510 ensure modified feature type is displayed	commit \| commitdiff \| tree
2017-05-04	gmungoc	Merge branch 'develop' of https://source.jalview.org...	commit \| commitdiff \| tree
2017-05-04	gmungoc	JAL-2504 allow feature type to be specified for Create...	commit \| commitdiff \| tree
2017-05-04	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-04	gmungoc	JAL-2505 delete and readd amended sequence feature	commit \| commitdiff \| tree
2017-05-04	gmungoc	JAL-2480 JAL-2505 guard against duplicating links	commit \| commitdiff \| tree
2017-05-03	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-03	gmungoc	JAL-2246 basic sanity test of fetching example accessions	commit \| commitdiff \| tree
2017-05-03	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-03	gmungoc	JAL-2246 test a Uniprot fetch	commit \| commitdiff \| tree
2017-05-03	gmungoc	JAL-2105 Ensembl REST now at 5.0	commit \| commitdiff \| tree
2017-05-03	gmungoc	JAL-2485 JAL-2246 test Uniprot FTS summary	commit \| commitdiff \| tree
2017-05-02	gmungoc	JAL-1933 Spanish for Occupancy	commit \| commitdiff \| tree
2017-05-02	gmungoc	JAL-2447 EXPERIMENTAL preference (option in Tools menu)	commit \| commitdiff \| tree
2017-05-02	gmungoc	JAL-2499 inlined two 1-line methods	commit \| commitdiff \| tree
2017-05-02	gmungoc	JAL-2499 JAL-2403 push 'configure for view' inside...	commit \| commitdiff \| tree
2017-05-02	gmungoc	Merge branch 'develop' into features/JAL-2393customMatrices	commit \| commitdiff \| tree
2017-05-01	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-05-01	gmungoc	JAL-2489 JAL-2371 reinstate calls to	commit \| commitdiff \| tree
2017-05-01	gmungoc	Merge remote-tracking branch	commit \| commitdiff \| tree
2017-04-28	gmungoc	Merge branch 'develop' into features/JAL-2446NCList	commit \| commitdiff \| tree
2017-04-28	gmungoc	Merge branch 'develop' into features/JAL-2393customMatrices	commit \| commitdiff \| tree
2017-04-27	gmungoc	JAL-2492 use SequenceFeatures.getNonPositionalFeatures()	commit \| commitdiff \| tree
2017-04-27	gmungoc	JAL-2480 don't allow null type in SequenceFeature	commit \| commitdiff \| tree
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