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jalview.git
2016-04-01 gmungocJAL-1705 tweak to MapList.toString for debugging commit | commitdiff | tree | snapshot
2016-04-01 gmungocJAL-1705 generalised getLength() to handle [start1... commit | commitdiff | tree | snapshot
2016-04-01 gmungocJAL-1705 test updated for canonicalised UNIPROT sequenc... commit | commitdiff | tree | snapshot
2016-04-01 gmungocJAL-1705 include stop codon in mapped CDS range so... commit | commitdiff | tree | snapshot
2016-04-01 gmungocJAL-2037 set DBRefEntry.version to "0" not "" in EMBL... commit | commitdiff | tree | snapshot
2016-04-01 gmungocJAL-1705 fetch all Ensembl xrefs (except GO terms) commit | commitdiff | tree | snapshot
2016-03-28 gmungocJAL-1705 Javadoc / debug output tweaks commit | commitdiff | tree | snapshot
2016-03-28 gmungocJAL-2016 push getFeatureColourScheme(source) into Seque... commit | commitdiff | tree | snapshot
2016-03-24 gmungocJAL-1705 removed experimental 'highlight selection... commit | commitdiff | tree | snapshot
2016-03-24 gmungocJAL-2032 structure follow mouseover in a copy of a... commit | commitdiff | tree | snapshot
2016-03-24 tcofoegbuJAL-1919 set DEFUALT_STRUCTURE_FORMAT to PDB commit | commitdiff | tree | snapshot
2016-03-23 tcofoegbumerge commit | commitdiff | tree | snapshot
2016-03-23 tcofoegbuJAL-2009 added programmatic custom feature setting... commit | commitdiff | tree | snapshot
2016-03-23 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-03-23 gmungocJAL-1705 add DBRefEntry for 'self' to retrieved transcr... commit | commitdiff | tree | snapshot
2016-03-23 gmungocJAL-1997 default empty tooltip required for correct... commit | commitdiff | tree | snapshot
2016-03-22 tcofoegburesolve conflict with Mungo's merge commit | commitdiff | tree | snapshot
2016-03-22 tcofoegbuJAL-1919 code improvement to make PDB sequence fetcher... commit | commitdiff | tree | snapshot
2016-03-22 gmungocMerge branch 'features/JAL-653_JAL-1766_htslib_refseqsu... commit | commitdiff | tree | snapshot
2016-03-22 gmungocJAL-1705 add xref seqs to 'parent' dataset only if... commit | commitdiff | tree | snapshot
2016-03-22 gmungocJAL-1191 isolated SequenceOntology (BioJava wrapper... commit | commitdiff | tree | snapshot
2016-03-22 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbuJAL-1919 refactor moved StructureViewerSettings commit | commitdiff | tree | snapshot
2016-03-21 gmungocMerge branch 'features/JAL-653_JAL-1766_htslib_refseqsu... commit | commitdiff | tree | snapshot
2016-03-21 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-03-21 gmungocJAL-2029 further fixes to get correct xrefs and xrefs... commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbumerged features/JAL-1919_mmCIF-Support to develop commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbudevelop merge features/JAL-1919_mmCIF-Support commit | commitdiff | tree | snapshot
2016-03-21 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... commit | commitdiff | tree | snapshot
2016-03-21 gmungocJAL-1855 dbfetch from /ena_sequence/, /ena_coding/ commit | commitdiff | tree | snapshot
2016-03-21 gmungocJAL-2029 many-to-many EnsemblCDS-to-Uniprot mappings commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbuJAL-2028 added improvement for preconfigured ordering... commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbumerge commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbumungo merge commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-03-21 tcofoegbuJAL-1667 Changed PDBSearchPanel's search result layout... commit | commitdiff | tree | snapshot
2016-03-16 gmungocMerge branch 'develop' of https://source.jalview.org... commit | commitdiff | tree | snapshot
2016-03-16 gmungocJAL-1705 xref ENST to correct (ENSP) accession id commit | commitdiff | tree | snapshot
2016-03-16 tcofoegbuJAL-2028 improvment to the displayed column customisation commit | commitdiff | tree | snapshot
2016-03-15 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... mungo_develop commit | commitdiff | tree | snapshot
2016-03-15 gmungocJAL-2016 corrected Javadoc, added test for anonymous... commit | commitdiff | tree | snapshot
2016-03-15 gmungocJAL-2016 FeatureSettingsI now FeatureSettingsModelI commit | commitdiff | tree | snapshot
2016-03-15 gmungocJAL-1705 code tidy/comment only commit | commitdiff | tree | snapshot
2016-03-15 gmungocJAL-1705 compute reverse complement of variants on... commit | commitdiff | tree | snapshot
2016-03-15 tcofoegbuJAL-1919 refined structure view annotation settings... commit | commitdiff | tree | snapshot
2016-03-11 tcofoegbuJAL-1478 Fixed ArrayIndexOutOfBoundsException while... commit | commitdiff | tree | snapshot
2016-03-11 tcofoegbumerge commit | commitdiff | tree | snapshot
2016-03-11 tcofoegbuJAL-2026 Bug fix for best quality filter commit | commitdiff | tree | snapshot
2016-03-11 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... commit | commitdiff | tree | snapshot
2016-03-11 gmungocJAL-1270 unit test for SequenceIdMatcher.SeqIdName commit | commitdiff | tree | snapshot
2016-03-11 gmungocJAL-1705 check Retry-After response header commit | commitdiff | tree | snapshot
2016-03-11 gmungocJAL-1705 javadoc added only commit | commitdiff | tree | snapshot
2016-03-11 gmungocJAL-1705 refactoring etc for fetching Ensembl --> Uniprot commit | commitdiff | tree | snapshot
2016-03-11 tcofoegbuJAL-1818 reimplemented sequence and annotation processi... commit | commitdiff | tree | snapshot
2016-03-10 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-03-10 tcofoegbuJAL-2025 added code to stanitise query for structure... commit | commitdiff | tree | snapshot
2016-03-10 tcofoegbuJAL-2024 code to enforce case insensitivity for manual... commit | commitdiff | tree | snapshot
2016-03-07 gmungocJAL-2023 CDS sequences added to / share alignment dataset commit | commitdiff | tree | snapshot
2016-03-04 gmungocJAL-1705 EnsemblGenomes a top level db source commit | commitdiff | tree | snapshot
2016-03-04 gmungocJAL-1705 parse 'description' from GFF as sequence descr... commit | commitdiff | tree | snapshot
2016-03-03 tcofoegbuJAL-1919 fixed bug causing PDBfile test failure commit | commitdiff | tree | snapshot
2016-03-03 gmungocJAL-1705 unit test for aligning with incomplete start... commit | commitdiff | tree | snapshot
2016-03-03 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-03-03 tcofoegbuJAL-1919 updated unicode mapping symbol commit | commitdiff | tree | snapshot
2016-03-03 tcofoegbuJAL-1919 updated unicode symbol for mapping commit | commitdiff | tree | snapshot
2016-03-03 gmungocJAL-1705 include stop codons in derived CDS; support... commit | commitdiff | tree | snapshot
2016-03-03 tcofoegbuJAL-1919 PDBfile and JmolParser refactor commit | commitdiff | tree | snapshot
2016-03-02 gmungocJAL-1705 include any unmapped protein start 'X' when... commit | commitdiff | tree | snapshot
2016-03-01 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... commit | commitdiff | tree | snapshot
2016-03-01 gmungocJAL-1705 align CDS to transcripts commit | commitdiff | tree | snapshot
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts commit | commitdiff | tree | snapshot
2016-02-26 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-02-26 tcofoegbuJAL-2009 reverted 'RES NUM' feature back to 'RESNUM' commit | commitdiff | tree | snapshot
2016-02-26 tcofoegbuJAL-1994 updated implementation for broken tests commit | commitdiff | tree | snapshot
2016-02-26 tcofoegbuJAL-1994 fix for broken tests commit | commitdiff | tree | snapshot
2016-02-25 tcofoegbuJAL-1919 initial support for mmCIF using JMol API.... commit | commitdiff | tree | snapshot
2016-02-25 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... commit | commitdiff | tree | snapshot
2016-02-23 tcofoegbudevelop merge commit | commitdiff | tree | snapshot
2016-02-23 tcofoegbuJAL-1720 renamed Structure Chooser filters according... commit | commitdiff | tree | snapshot
2016-02-22 tcofoegbuJAL-1720 JAL-2002 improvement for 'uniprot coverage... commit | commitdiff | tree | snapshot
2016-02-22 tcofoegbuJAL-1944 bugfix for error when exporting hidden sequenc... commit | commitdiff | tree | snapshot
2016-02-22 gmungocJAL-1705 first pass at applying preset feature colourin... commit | commitdiff | tree | snapshot
2016-02-20 gmungocMerge branch 'mungo_develop' into features/JAL-653_JAL... commit | commitdiff | tree | snapshot
2016-02-20 gmungocMerge branch 'JAL-1956_featureStyles' into features... commit | commitdiff | tree | snapshot
2016-02-20 gmungocJAL-2016 first draft of pre-set feature colour scheme commit | commitdiff | tree | snapshot
2016-02-20 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 handle case of sequence with no dataset sequence commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 regular expression updates, tests, other refac... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 updated for change to CrossRef signature commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 refactor show products, set initial split... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 more lenient test for 'sequence retrieved' commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 return Ensembl genes for model species for... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 JAL-1191 more terms added to hard-coded version commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1706 reverted setting start position as too confusi... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 lenient DBRef matcher added (accession id... commit | commitdiff | tree | snapshot
2016-02-19 gmungocJAL-1705 helper method for mapping excluding stop codon commit | commitdiff | tree | snapshot
2016-02-19 tcofoegbuJAL-2009 Codes to enable storing inserted residues... commit | commitdiff | tree | snapshot
2016-02-12 gmungocJAL-1270 remove trailing space + test commit | commitdiff | tree | snapshot
2016-02-12 gmungocJAL-1705 various refactoring towards Uniprot-to-Ensembl... commit | commitdiff | tree | snapshot
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