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JAL-1926 JAL-2106 fix name for flag controlling addition of secondary structure annot...
[jalview.git] / test / jalview / analysis /
2016-07-12 Jim ProcterJAL-2110 note about use case for when alignAsSameSequen... tree | commitdiff
2016-07-12 Jim ProcterJAL-2110 test demonstrating limitation of current imple... tree | commitdiff
2016-07-07 gmungocJAL-2110 added alignAsSameSequences to handle 'direct... tree | commitdiff
2016-07-06 gmungocJAL-2110 ensuring mapped dbrefs between protein and cds tree | commitdiff
2016-07-04 gmungocRevert "JAL-2110 use shared alignment dataset when... tree | commitdiff
2016-07-04 gmungocJAL-2110 use shared alignment dataset when copying... tree | commitdiff
2016-07-04 gmungocJAL-2110 bug fix / test for searchDataset mappings... tree | commitdiff
2016-07-01 gmungocJAL-2110 add 'products' parameter to filter results... tree | commitdiff
2016-06-23 Jim ProcterJAL-2110 JAL-1551 formatting tree | commitdiff
2016-06-23 Jim ProcterJAL-2110 enable and fix failing tests tree | commitdiff
2016-06-23 Jim ProcterJAL-2110 enable and fix test tree | commitdiff
2016-06-22 Jim ProcterJAL-2110 remove hardwired detection of search context... tree | commitdiff
2016-06-21 gmungocJAL-2110 updated unit test to match code changes tree | commitdiff
2016-06-20 Jim ProcterJAL-2110 pass dataset to makeCDSalignment tree | commitdiff
2016-06-16 Jim ProcterJAL-2110 change test for desired behaviour of getCodonF... tree | commitdiff
2016-06-16 Jim ProcterJAL-2110 throw implementation error if not given a... tree | commitdiff
2016-06-14 gmungocJAL-2110 fixes to dbref resolution and mappings, use... tree | commitdiff
2016-06-09 gmungocJAL-2110 work in progress tree | commitdiff
2016-06-03 gmungocJAL-2110 random stuff tree | commitdiff
2016-06-02 gmungocMerge branch 'develop' into features/JAL-2110_makeSense... tree | commitdiff
2016-06-01 Jim ProcterJAL-2038 fix tests for case insensitive eSequenceIdMatcher tree | commitdiff
2016-05-25 gmungocJAL-2110 wip CrossRefs rewrite of CrossRef tree | commitdiff
2016-05-20 gmungocJAL-2110 unit tests for and minor refactoring of CrossRef tree | commitdiff
2016-05-20 gmungocJAL-2049 unit test updated for HGVS syntax, feature... tree | commitdiff
2016-04-24 Jim ProcterJAL-2075 test showing hidden columns bug in feature... tree | commitdiff
2016-04-24 Jim ProcterJAL-2075 refactor FeatureScoreModel to native testNG... tree | commitdiff
2016-04-14 gmungocJAL-2041 add ID,clinical_significance to feature attrib... tree | commitdiff
2016-04-14 gmungocJAL-2049 revised computePeptideVariants to transfer... tree | commitdiff
2016-04-13 Jim ProcterJAL-2046 test to demonstrate feature duplication bug tree | commitdiff
2016-04-12 gmungocJAL-2049 separate protein variant per dna variant ... tree | commitdiff
2016-04-01 gmungocJAL-1705 ensure the right mapping is used to align... tree | commitdiff
2016-04-01 gmungocJAL-1705 reworked AlignmentUtils.makeCdsAlignment and... tree | commitdiff
2016-03-11 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... tree | commitdiff
2016-03-11 gmungocJAL-1270 unit test for SequenceIdMatcher.SeqIdName tree | commitdiff
2016-03-11 gmungocJAL-1705 refactoring etc for fetching Ensembl --> Uniprot tree | commitdiff
2016-03-07 gmungocJAL-2023 CDS sequences added to / share alignment dataset tree | commitdiff
2016-03-03 gmungocJAL-1705 unit test for aligning with incomplete start... tree | commitdiff
2016-03-01 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... tree | commitdiff
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts tree | commitdiff
2016-02-26 tcofoegbuJAL-1994 fix for broken tests tree | commitdiff
2016-02-12 gmungocJAL-2008 avoid unnecessary repaints; signatures changed... tree | commitdiff
2016-01-28 gmungocJAL-1705 refine feature copying to including 5' and... tree | commitdiff
2016-01-28 gmungocMerge branch 'develop' into JAL-1705_trialMerge tree | commitdiff
2016-01-21 gmungocJAL-1705 features transferred to CDS sequence; makeExon... tree | commitdiff
2016-01-05 gmungocJAL-653 updating 'align as' tests to match latest tweak... tree | commitdiff
2015-12-22 gmungocJAL-391 new Calculate options to Reverse, Reverse Compl... tree | commitdiff
2015-12-22 gmungocJAL-653 AlignedCodonFrame collections changed from... tree | commitdiff
2015-11-05 tcofoegbuJAL-1942 JAL-1479 refactored SequenceI.getDBRef/Sequenc... tree | commitdiff
2015-10-15 tcofoegbuJAL-1479 refactored SequenceI interface - changed getDB... tree | commitdiff
2015-10-08 Jim ProcterJAL-1894 organise imports tree | commitdiff
2015-09-14 gmungocJAL-1880 handle sequence offsets properly when mapping... tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 licencing for new files in test and utils tree | commitdiff
2015-09-10 Jim ProcterJAL-1645 source formatting and organise imports tree | commitdiff
2015-09-09 gmungocJAL-1619 'align protein as cDNA' now leaves unmapped... tree | commitdiff
2015-09-07 gmungocJAL-1636 translate stop codon as '*', mouseover * as... tree | commitdiff
2015-09-07 gmungocJAL-1152 check 'autocalculated' not 'null sequenceRef... tree | commitdiff
2015-08-17 gmungocJAL-1270 testIsMappable added tree | commitdiff
2015-07-23 tcofoegbuJAL-1805 modified test setup's so the are ran for group... tree | commitdiff
2015-07-08 gmungocJAL-1759 merge from develop tree | commitdiff
2015-07-07 tcofoegbuJAL-1805 test envirionment separation tree | commitdiff
2015-07-06 gmungocJAL-1081 unit tests added tree | commitdiff
2015-07-06 gmungocJAL-1782 refactored test to ensure it passes in TestNG tree | commitdiff
2015-06-26 gmungocMerge branch 'develop' into features/JAL-892varnaToProject tree | commitdiff
2015-06-26 gmungocMerge branch 'develop' into features/JAL-1759jmolUpdate tree | commitdiff
2015-06-23 Jim ProcterJAL-1782 JAL-1780 JAL-653 JAL-1892 update patched refac... tree | commitdiff
2015-06-22 Jim ProcterJAL-1780 JAL-653 Format/AppletFormat import and export... tree | commitdiff
2015-06-22 Jim ProcterJAL-653 JAL-1780 reorder imports tree | commitdiff
2015-06-19 tcofoegbuJAL-1270 test suits import order refactor features/JAL-1270_JUnit-to-TestNG features/JAL-1782_JUnit-to-TestNG tree | commitdiff
2015-06-19 tcofoegbuJAL-1270 JUnit to TestNG refactoring tree | commitdiff
2015-06-18 gmungocJAL-1270 test added tree | commitdiff
2015-06-04 gmungocJAL-1750 small tidy of AlignSeq.printMapping (+Junit) tree | commitdiff
2015-05-18 gmungocJAL-1737 updated JUnit so it creates positional annotations tree | commitdiff
2015-05-15 gmungocJAL-1270 added test for regex actually used; include... tree | commitdiff
2015-05-15 gmungocJAL-1270 main methods converted to JUnit tree | commitdiff
2015-05-13 gmungocJAL-1712 fixes/tests for Castor binding of EMBL XML... tree | commitdiff
2015-05-12 gmungocJAL-1712 fixes/tests for Castor binding and 'show flank... tree | commitdiff
2015-04-21 gmungocJAL-1693 mappings added back to the original alignment tree | commitdiff
2015-04-14 gmungocJAL-1693 generate multiple exon sequences for 1-many... tree | commitdiff
2015-04-13 gmungocJAL-1693 make exon alignment for get-xref splitframe... tree | commitdiff
2015-03-30 gmungocJAL-1264 remove broken applet build dependencies tree | commitdiff
2015-03-26 gmungocMerge develop to Release_2_8_3_Branch tree | commitdiff
2015-03-06 Jim ProcterJAL-1683 replace year/version strings with tokens in... tree | commitdiff
2015-03-06 Jim ProcterMerge commit 'ab43013b7e357b84b4abade0dba949668dfb2a0e... tree | commitdiff
2015-02-12 Jim ProcterJAL-1350 forgot to remove empty test tree | commitdiff
2015-02-12 Jim ProcterJAL-1350 cloned method and tested equivalence for using... tree | commitdiff
2015-01-07 Jim ProcterJAL-1483 basic test of sequence similarity score model... tree | commitdiff
2014-12-15 Jim ProcterJAL-1620 version bump and release notes tree | commitdiff
2014-11-04 gmungocJAL-1152 annotation sort algorithm optimisation tree | commitdiff
2014-10-31 gmungocJAL-1152 bug fix for 'no sort' case + tests for autocal... tree | commitdiff
2014-10-31 gmungocJAL-1152 menu tweaks plus new option to put Autocalc... tree | commitdiff
2014-10-30 gmungocJAL-1152 with sticky annotation sort order that updates... tree | commitdiff
2014-10-30 gmungocJAL-1152 prototype of new Annotations menu with sort... tree | commitdiff
2014-10-23 gmungocJAL-1264 further refactoring and tests tree | commitdiff
2014-06-06 Jim ProcterJAL-1517 source formatting tree | commitdiff
2014-06-06 Jim ProcterJAL-1517 fix copyright for 2.8.2 tree | commitdiff
2014-06-05 Jim ProcterJAL-1517 update copyright to version 2.8.2 tree | commitdiff
2014-06-05 Jim ProcterMerge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch tree | commitdiff
2014-05-22 Jim ProcterJAL-1503 update version in GPL header tree | commitdiff
2014-04-21 Jim ProcterMerge branch 'jims_marckhacks' into develop tree | commitdiff
2014-04-21 Jim ProcterJAL-1466 improved test and patched off by one that... tree | commitdiff
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