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Merge branch 'releases/Release_2_11_3_Branch'
[jalview.git] / src / jalview / ext / ensembl / EnsemblGene.java
2023-11-03 James ProcterJAL-4090 JAL-1551 spotlessApply commit | commitdiff
2023-08-10 Ben SoaresJAL-629 Change all stdout and stderr output to use... commit | commitdiff
2022-03-08 Jim ProcterJAL-3438 spotless for 2.11.2.0 commit | commitdiff
2021-09-02 gmungocJAL-1842 adjust code to match changed semantics of... commit | commitdiff
2020-02-06 gmungocJAL-1842 adjust code to match changed semantics of... commit | commitdiff
2019-07-16 gmungocJAL-3210 Merge branch 'develop' into trialMerge commit | commitdiff
2019-06-07 gmungocJAL-2738 use GeneLocus extends DBRefEntry to hold chrom... commit | commitdiff
2019-04-01 gmungocJAL-3032 use small example Ensembl gene for JalviewJS commit | commitdiff
2019-01-26 hansonrPlatform.timecheck calls removed or commented out. commit | commitdiff
2019-01-26 hansonrJalview.isJS() --> Platform.isJS(), DBRefEntry[] -... commit | commitdiff
2018-10-25 gmungocJAL-3143 fetch Ensembl(Genomes) features as JSON not GFF commit | commitdiff
2018-08-10 gmungocJAL-3076 refactor for more efficient scan of 'gene... commit | commitdiff
2018-01-30 gmungocJAL-1793 update spike build to latest incl stop and... commit | commitdiff
2018-01-26 gmungocMerge branch 'develop' into features/JAL-1793VCF commit | commitdiff
2018-01-18 gmungocJAL-2679 update query id to actual case of retrieved... commit | commitdiff
2018-01-17 gmungocJAL-2679 case-insensitive comparison of query and retri... commit | commitdiff
2018-01-16 gmungocJAL-2679 use object_type=Transcript for lookup of Paren... commit | commitdiff
2017-10-27 gmungocJAL-1793 spike branch updated to latest commit | commitdiff
2017-10-25 gmungocJAL-2743 fall back to parsing description if chromosome... commit | commitdiff
2017-10-24 gmungocJAL-2743 look up species and gene loci for Ensembl... commit | commitdiff
2017-10-24 gmungocJAL-2738 update spike branch with latest commit | commitdiff
2017-10-24 gmungocMerge branch 'develop' into features/JAL-1793VCF; lambd... commit | commitdiff
2017-10-23 Jim ProcterMerge branch 'bug/JAL-2253' into develop commit | commitdiff
2017-10-03 gmungocJAL-2738 copy to spikes/mungo commit | commitdiff
2017-10-02 gmungocMerge branch 'develop' into features/JAL-1793VCF commit | commitdiff
2017-10-02 gmungocJAL-2525 lookup transcript features by Ontology commit | commitdiff
2017-09-28 gmungocJAL-1796 GeneLociI as distinguished DBRefEntry commit | commitdiff
2017-09-26 gmungocJAL-2738 unit test for reverse strand gene commit | commitdiff
2017-09-25 gmungocJAL-2738 use complement base for a VCF variant on rever... commit | commitdiff
2017-09-22 gmungocJAL-2738 correct handling of reverse strand genes commit | commitdiff
2017-09-21 gmungocJAL-2738 add chromosome coordinate mappings to transcripts commit | commitdiff
2017-08-31 gmungocJAL-2253 safer simpler resolution of identifiers using... commit | commitdiff
2017-08-21 gmungocMerge branch 'develop' into features/JAL-2446NCList features/JAL-2446NCList commit | commitdiff
2017-08-16 Jim ProcterJAL-2418 source formatting commit | commitdiff
2017-06-09 gmungocJAL-2446 merged to spike branch commit | commitdiff
2017-06-05 gmungocMerge branch 'develop' into features/JAL-2446NCList commit | commitdiff
2017-06-04 Jim ProcterJAL-2582 comment about IDs being lost if they resembl... commit | commitdiff
2017-06-04 Jim ProcterJAL-2582 recognise ENS…P peptide IDs and make two getPa... commit | commitdiff
2017-05-16 gmungocJAL-2525 put in missing "transcript" feature type commit | commitdiff
2017-05-12 gmungocJAL-2525 get sequence features for Ontology term(s... commit | commitdiff
2016-10-05 Jim ProcterJAL-2189 apply license commit | commitdiff
2016-10-05 Jim ProcterJAL-2189 source formatting commit | commitdiff
2016-09-18 Jim ProcterJAL-1795 JAL-2206 prevent NPE when no data returned... commit | commitdiff
2016-08-25 Jim ProcterJAL-2106 JAL-2154 cross-refs from Ensembl should verify... commit | commitdiff
2016-05-10 gmungocMerge branch 'develop' into features/JAL-1956_featureStyles commit | commitdiff
2016-04-29 gmungocJAL-2051 better checking of retrieved / duplicated... commit | commitdiff
2016-04-11 gmungocJAL-2051 fetch Ensembl Gene accessions one at a time commit | commitdiff
2016-04-01 gmungocJAL-1705 fetch all Ensembl xrefs (except GO terms) commit | commitdiff
2016-03-15 gmungocJAL-2016 FeatureSettingsI now FeatureSettingsModelI commit | commitdiff
2016-03-15 gmungocJAL-1705 code tidy/comment only commit | commitdiff
2016-03-11 gmungocJAL-1705 refactoring etc for fetching Ensembl --> Uniprot commit | commitdiff
2016-03-04 gmungocJAL-1705 parse 'description' from GFF as sequence descr... commit | commitdiff
2016-03-03 gmungocJAL-1705 include stop codons in derived CDS; support... commit | commitdiff
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts commit | commitdiff
2016-02-22 gmungocJAL-1705 first pass at applying preset feature colourin... commit | commitdiff
2016-02-19 gmungocJAL-1705 return Ensembl genes for model species for... commit | commitdiff
2016-02-12 gmungocJAL-1705 various refactoring towards Uniprot-to-Ensembl... commit | commitdiff
2016-02-04 gmungocJAL-1705 additional tests, validation regexp tweaks... commit | commitdiff
2016-02-01 gmungocJAL-1705 JAL-1191 SequenceOntologyLite added as hard... commit | commitdiff
2016-01-30 gmungocJAL-1705 refactored cross-reference fetching (CCDS... commit | commitdiff
2016-01-27 gmungocJAL-1705 use GET for single queries; set gene name... commit | commitdiff
2016-01-26 gmungocJAL-1705 derive transcript sequences from gene sequence... commit | commitdiff
2016-01-25 gmungocJAL-1705 EnsemblGene added, and related refactoring commit | commitdiff