| 2016-05-27 |
gmungoc | JAL-1989 added hashCode and equals, renamed field to...
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commit | commitdiff | tree |
| 2016-05-27 |
gmungoc | JAL-1911 use existing object when setting 'Prompt each...
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commit | commitdiff | tree |
| 2016-05-27 |
gmungoc | JAL-1942 small tidy (formatting, explict imports, typed...
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commit | commitdiff | tree |
| 2016-05-27 |
gmungoc | JAL-1911 correct typo in field name
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-391 add reverse / complement to command history...
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-2035 relocated a comment
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-1670 add non-positional feature with link to demonstrate...
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-1993 open sequence fetcher tree on 'fetch sequences'
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-1797 non-case-sensitive counting of residues /...
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-2008 drag to reorder features not available in...
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commit | commitdiff | tree |
| 2016-05-26 |
gmungoc | JAL-2079 update examples to new pfam.xfam.org domain
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commit | commitdiff | tree |
| 2016-05-20 |
gmungoc | JAL-2114 explicit invalid test cases added
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commit | commitdiff | tree |
| 2016-05-20 |
gmungoc | JAL-2114 accept "<123..178" or "123..>178" format
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commit | commitdiff | tree |
| 2016-05-20 |
gmungoc | JAL-2115 updated web link for MAFFT (and one typo)
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commit | commitdiff | tree |
| 2016-05-20 |
gmungoc | JAL-2049 unit test updated for HGVS syntax, feature...
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commit | commitdiff | tree |
| 2016-05-19 |
gmungoc | JAL-2114 added single-locus case and more error tests
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commit | commitdiff | tree |
| 2016-05-19 |
gmungoc | JAL-2114 parser + tests for GenBank location descriptors
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commit | commitdiff | tree |
| 2016-05-18 |
gmungoc | JAL-2049 set sequence feature group to "Jalview" for...
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commit | commitdiff | tree |
| 2016-05-18 |
gmungoc | JAL-2049 use HGVS notation for variant on protein residue
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commit | commitdiff | tree |
| 2016-05-13 |
gmungoc | JAL-2105 capture Ensembl data version, check REST version...
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commit | commitdiff | tree |
| 2016-05-12 |
gmungoc | JAL-2104 format tooltips to wrap correctly
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commit | commitdiff | tree |
| 2016-05-09 |
gmungoc | JAL-2098 identify feature file with "<" in feature...
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commit | commitdiff | tree |
| 2016-05-09 |
gmungoc | JAL-2018 export graduated feature colours correctly
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commit | commitdiff | tree |
| 2016-05-05 |
gmungoc | JAL-2068 better documentation in example script
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | JAL-2074 reinstated xerces-impl.jar
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | JAL-2092 hide columns with/without feature
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | JAL-2074 corrected classpathentry for Groovy 2.4.6
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | Merge branch 'groovy/JAL-2074_upgradeto2.4.4' into...
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commit | commitdiff | tree |
| 2016-05-04 |
gmungoc | JAL-2090 removed test for Java > 1.1 to enable transparency
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commit | commitdiff | tree |
| 2016-05-03 |
gmungoc | JAL-2050 hide introns also when fetching Ensembl xrefs...
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commit | commitdiff | tree |
| 2016-04-29 |
gmungoc | JAL-2051 better checking of retrieved / duplicated...
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commit | commitdiff | tree |
| 2016-04-29 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-29 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-28 |
gmungoc | JAL-2083 removed use of reflection for Groovy
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commit | commitdiff | tree |
| 2016-04-26 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-26 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-26 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-25 |
gmungoc | JAL-2078 fixed broken link to groovy page
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commit | commitdiff | tree |
| 2016-04-25 |
gmungoc | JAL-1812 JAL-2068 only allow one Groovy console open...
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-1812 JAL-2068 add Run Groovy Script to AlignFrame...
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-2068 code and test for case of minValue == maxValue
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-2068 framework and example scripts for pluggable...
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-2068 Javadoc added
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-2068 redundant implements clauses removed
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commit | commitdiff | tree |
| 2016-04-22 |
gmungoc | JAL-2068 convenience helper method for graduated score...
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commit | commitdiff | tree |
| 2016-04-21 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-18 |
gmungoc | JAL-2067 fixed broken link
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-2041 add ID,clinical_significance to feature attributes...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-2041 clinical_significance shown on sequence feature...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-1421 typed map / lists, explicit imports, method...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-2049 small refactor of constructors to avoid code...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-1421 type parameter added to some collections
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-2049 revised computePeptideVariants to transfer...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-1705 refactored/utility methods to detect e.g....
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-653 test updated for 'use ID for description'
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commit | commitdiff | tree |
| 2016-04-14 |
gmungoc | JAL-1270 JAL-653 use 'parse immediately' FeaturesFile...
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commit | commitdiff | tree |
| 2016-04-12 |
gmungoc | JAL-2050 only hide introns if exons are present! Removed...
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commit | commitdiff | tree |
| 2016-04-12 |
gmungoc | JAL-2049 separate protein variant per dna variant ...
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commit | commitdiff | tree |
| 2016-04-11 |
gmungoc | JAL-1705 code/comment tidy only
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commit | commitdiff | tree |
| 2016-04-11 |
gmungoc | JAL-2051 fetch Ensembl Gene accessions one at a time
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commit | commitdiff | tree |
| 2016-04-11 |
gmungoc | JAL-391 help for reverse / complement options
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commit | commitdiff | tree |
| 2016-04-11 |
gmungoc | JAL-1705 (new preference option to) hide introns when...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | Merge branch 'features/JAL-653_JAL-1766_htslib_refseqsupport...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 ensure the right mapping is used to align...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | Merge branch 'develop' into features/JAL-653_JAL-1766_htslib...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-2046 fix for broken test for deriveSequence
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 reworked AlignmentUtils.makeCdsAlignment and...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-653 updated test to match parsing of multi-valued...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 tweak to MapList.toString for debugging
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 generalised getLength() to handle [start1...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 test updated for canonicalised UNIPROT sequence...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 include stop codon in mapped CDS range so...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-2037 set DBRefEntry.version to "0" not "" in EMBL...
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commit | commitdiff | tree |
| 2016-04-01 |
gmungoc | JAL-1705 fetch all Ensembl xrefs (except GO terms)
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commit | commitdiff | tree |
| 2016-03-28 |
gmungoc | JAL-1705 Javadoc / debug output tweaks
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commit | commitdiff | tree |
| 2016-03-28 |
gmungoc | JAL-2016 push getFeatureColourScheme(source) into SequenceFe...
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commit | commitdiff | tree |
| 2016-03-28 |
gmungoc | JAL-2036 update AlignFrame menus when dbreffetcher...
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commit | commitdiff | tree |
| 2016-03-24 |
gmungoc | JAL-1705 removed experimental 'highlight selection...
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commit | commitdiff | tree |
| 2016-03-24 |
gmungoc | JAL-2032 structure follow mouseover in a copy of a...
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commit | commitdiff | tree |
| 2016-03-23 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-03-23 |
gmungoc | JAL-1705 add DBRefEntry for 'self' to retrieved transcripts...
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commit | commitdiff | tree |
| 2016-03-23 |
gmungoc | JAL-1997 default empty tooltip required for correct...
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commit | commitdiff | tree |
| 2016-03-22 |
gmungoc | Merge branch 'features/JAL-653_JAL-1766_htslib_refseqsupport...
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commit | commitdiff | tree |
| 2016-03-22 |
gmungoc | JAL-1705 add xref seqs to 'parent' dataset only if...
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commit | commitdiff | tree |
| 2016-03-22 |
gmungoc | JAL-1191 isolated SequenceOntology (BioJava wrapper...
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commit | commitdiff | tree |
| 2016-03-22 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | Merge branch 'features/JAL-653_JAL-1766_htslib_refseqsupport...
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | JAL-2029 further fixes to get correct xrefs and xrefs...
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | Merge branch 'develop' into features/JAL-653_JAL-1766_htslib...
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | JAL-1855 dbfetch from /ena_sequence/, /ena_coding/
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commit | commitdiff | tree |
| 2016-03-21 |
gmungoc | JAL-2029 many-to-many EnsemblCDS-to-Uniprot mappings
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commit | commitdiff | tree |
| 2016-03-16 |
gmungoc | Merge branch 'develop' of https://source.jalview.org...
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commit | commitdiff | tree |
| 2016-03-16 |
gmungoc | JAL-1705 xref ENST to correct (ENSP) accession id
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commit | commitdiff | tree |
| 2016-03-15 |
gmungoc | Merge branch 'develop' into features/JAL-653_JAL-1766_htslib...
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commit | commitdiff | tree |
| 2016-03-15 |
gmungoc | JAL-2016 corrected Javadoc, added test for anonymous...
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commit | commitdiff | tree |
| 2016-03-15 |
gmungoc | JAL-2016 FeatureSettingsI now FeatureSettingsModelI
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commit | commitdiff | tree |
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