re-enabled new uniprot sequence fetcher on spike branch
[jalview.git] / src /
2016-03-28 gmungocJAL-2016 push getFeatureColourScheme(source) into Seque...
2016-03-28 gmungocJAL-2036 update AlignFrame menus when dbreffetcher...
2016-03-25 tcofoegbuJAL-2035 improvement to bind Jalview to Chimera model...
2016-03-24 tcofoegbuJAL-1919 Settings to disable duplicate generation of...
2016-03-24 tcofoegbuJAL-1479 Commented out debug sysout's for SiftsClient
2016-03-24 tcofoegbuJAL-1919 Added ability to generate temprature factor...
2016-03-24 tcofoegbumerge
2016-03-24 tcofoegbufixed applet build
2016-03-24 gmungocJAL-1705 removed experimental 'highlight selection...
2016-03-24 gmungocJAL-2032 structure follow mouseover in a copy of a...
2016-03-24 tcofoegbuJAL-1919 set DEFUALT_STRUCTURE_FORMAT to PDB
2016-03-23 tcofoegbumerge
2016-03-23 tcofoegbuJAL-2009 added programmatic custom feature setting...
2016-03-23 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-03-23 gmungocJAL-1705 add DBRefEntry for 'self' to retrieved transcr...
2016-03-23 gmungocJAL-1997 default empty tooltip required for correct...
2016-03-22 tcofoegburesolve conflict with Mungo's merge
2016-03-22 tcofoegbuJAL-1919 code improvement to make PDB sequence fetcher...
2016-03-22 gmungocMerge branch 'features/JAL-653_JAL-1766_htslib_refseqsu...
2016-03-22 gmungocJAL-1705 add xref seqs to 'parent' dataset only if...
2016-03-22 gmungocJAL-1191 isolated SequenceOntology (BioJava wrapper...
2016-03-22 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-03-21 tcofoegbuJAL-1919 refactor moved StructureViewerSettings
2016-03-21 gmungocMerge branch 'features/JAL-653_JAL-1766_htslib_refseqsu...
2016-03-21 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-03-21 gmungocJAL-2029 further fixes to get correct xrefs and xrefs...
2016-03-21 tcofoegbudevelop merge features/JAL-1919_mmCIF-Support
2016-03-21 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2016-03-21 gmungocJAL-1855 dbfetch from /ena_sequence/, /ena_coding/
2016-03-21 gmungocJAL-2029 many-to-many EnsemblCDS-to-Uniprot mappings
2016-03-21 tcofoegbuJAL-2028 added improvement for preconfigured ordering...
2016-03-21 tcofoegbudevelop merge
2016-03-21 tcofoegbumungo merge
2016-03-21 tcofoegbudevelop merge
2016-03-21 tcofoegbuJAL-1667 Changed PDBSearchPanel's search result layout...
2016-03-16 gmungocMerge branch 'develop' of https://source.jalview.org...
2016-03-16 gmungocJAL-1705 xref ENST to correct (ENSP) accession id
2016-03-16 tcofoegbuJAL-2028 improvment to the displayed column customisation
2016-03-15 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h... mungo_develop
2016-03-15 gmungocJAL-2016 corrected Javadoc, added test for anonymous...
2016-03-15 gmungocJAL-2016 FeatureSettingsI now FeatureSettingsModelI
2016-03-15 gmungocJAL-1705 code tidy/comment only
2016-03-15 gmungocJAL-1705 compute reverse complement of variants on...
2016-03-15 tcofoegbuJAL-1919 refined structure view annotation settings...
2016-03-11 tcofoegbuJAL-1478 Fixed ArrayIndexOutOfBoundsException while...
2016-03-11 tcofoegbumerge
2016-03-11 tcofoegbuJAL-2026 Bug fix for best quality filter
2016-03-11 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2016-03-11 gmungocJAL-1270 unit test for SequenceIdMatcher.SeqIdName
2016-03-11 gmungocJAL-1705 check Retry-After response header
2016-03-11 gmungocJAL-1705 javadoc added only
2016-03-11 gmungocJAL-1705 refactoring etc for fetching Ensembl --> Uniprot
2016-03-11 tcofoegbuJAL-1818 reimplemented sequence and annotation processi...
2016-03-10 tcofoegbudevelop merge
2016-03-10 tcofoegbuJAL-2025 added code to stanitise query for structure...
2016-03-10 tcofoegbuJAL-2024 code to enforce case insensitivity for manual...
2016-03-07 gmungocJAL-2023 CDS sequences added to / share alignment dataset
2016-03-04 gmungocJAL-1705 EnsemblGenomes a top level db source
2016-03-04 gmungocJAL-1705 parse 'description' from GFF as sequence descr...
2016-03-03 tcofoegbuJAL-1919 fixed bug causing PDBfile test failure
2016-03-03 tcofoegbuJAL-1919 updated unicode mapping symbol
2016-03-03 tcofoegbuJAL-1919 updated unicode symbol for mapping
2016-03-03 gmungocJAL-1705 include stop codons in derived CDS; support...
2016-03-03 tcofoegbuJAL-1919 PDBfile and JmolParser refactor
2016-03-02 gmungocJAL-1705 include any unmapped protein start 'X' when...
2016-03-01 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2016-03-01 gmungocJAL-1705 align CDS to transcripts
2016-03-01 gmungocJAL-1705 align CDS and peptide products to transcripts
2016-02-26 tcofoegbudevelop merge
2016-02-26 tcofoegbuJAL-2009 reverted 'RES NUM' feature back to 'RESNUM'
2016-02-26 tcofoegbuJAL-1994 updated implementation for broken tests
2016-02-26 tcofoegbuJAL-1994 fix for broken tests
2016-02-25 tcofoegbuJAL-1919 initial support for mmCIF using JMol API....
2016-02-25 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2016-02-23 tcofoegbudevelop merge
2016-02-23 tcofoegbuJAL-1720 renamed Structure Chooser filters according...
2016-02-22 tcofoegbuJAL-1720 JAL-2002 improvement for 'uniprot coverage...
2016-02-22 tcofoegbuJAL-1944 bugfix for error when exporting hidden sequenc...
2016-02-22 gmungocJAL-1705 first pass at applying preset feature colourin...
2016-02-20 gmungocMerge branch 'mungo_develop' into features/JAL-653_JAL...
2016-02-20 gmungocMerge branch 'JAL-1956_featureStyles' into features...
2016-02-20 gmungocJAL-2016 first draft of pre-set feature colour scheme
2016-02-20 gmungocMerge branch 'develop' into features/JAL-653_JAL-1766_h...
2016-02-19 gmungocJAL-1705 handle case of sequence with no dataset sequence
2016-02-19 gmungocJAL-1705 regular expression updates, tests, other refac...
2016-02-19 gmungocJAL-1705 refactor show products, set initial split...
2016-02-19 gmungocJAL-1705 more lenient test for 'sequence retrieved'
2016-02-19 gmungocJAL-1705 return Ensembl genes for model species for...
2016-02-19 gmungocJAL-1705 JAL-1191 more terms added to hard-coded version
2016-02-19 gmungocJAL-1706 reverted setting start position as too confusi...
2016-02-19 gmungocJAL-1705 lenient DBRef matcher added (accession id...
2016-02-19 gmungocJAL-1705 helper method for mapping excluding stop codon
2016-02-19 tcofoegbuJAL-2009 Codes to enable storing inserted residues...
2016-02-12 gmungocJAL-1270 remove trailing space + test
2016-02-12 gmungocJAL-1705 various refactoring towards Uniprot-to-Ensembl...
2016-02-12 gmungocJAL-1191 additions to SOLite, tweak to test
2016-02-12 gmungocJAL-1705 take feature ID for description if nothing...
2016-02-12 gmungocJAL-282 wrap very long id in tooltip
2016-02-12 gmungocJAL-1705 JAL-1686 stronger SequenceFeature.equals(...
2016-02-12 gmungocJAL-2010 simple prototype of 'Highlight Selection'...
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