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JAL-3851 changed error response status codes to 201 for jetty reasons. Some example...
[jalview.git]
/
src
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jalview
/
datamodel
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2021-06-09
Jim Procter
JAL-3840 don’t update the modal residue count for gaps
patch/JAL-3840_2_11_2
tree
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commitdiff
2021-06-09
Jim Procter
fixes JAL-3840
tree
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commitdiff
2021-06-09
Jim Procter
JAL-3840 failing test - show that addGaps overflows
tree
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commitdiff
2020-08-17
Jim Procter
JAL-3490 merged with 2.11.2 develop
tree
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commitdiff
2020-05-19
gmungoc
JAL-3621 corrected sequence feature sort and test
tree
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commitdiff
2020-05-19
gmungoc
Merge branch 'develop' into feature/JAL-3551Pymol
tree
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commitdiff
2020-05-18
gmungoc
JAL-3621 update to intervalstore v1.1
tree
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commitdiff
2020-05-18
gmungoc
Merge branch 'Jalview-JS/develop' into develop
tree
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commitdiff
2020-05-01
gmungoc
JAL-3613 check sequence overlap when matching search...
tree
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commitdiff
2020-04-21
Jim Procter
JAL-3407 add GPL license to Jalview source files
tree
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commitdiff
2020-04-21
Jim Procter
JAL-3567 translated rather than imputed peptide
tree
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commitdiff
2020-04-17
gmungoc
JAL-3567 unit tests for linked feature tooltips
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 adjust layout of linked feature report, unit...
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 added 'imputed by Jalview' to protein conseque...
tree
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commitdiff
2020-04-16
gmungoc
JAL-3567 report mapped location for virtual features...
tree
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commitdiff
2020-03-30
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2020-02-27
Jim Procter
Merge branch 'bug/JAL-3296changeStartInvalidateCursor...
tree
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commitdiff
2020-01-28
gmungoc
Merge branch 'feature/JAL-3121gffAttributeMap' into...
tree
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commitdiff
2019-11-01
Ben Soares
JAL-3474 removed all .cvsignore files stored in the...
improvement/JAL-3474_lots_of_.cvsignore_files
tree
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commitdiff
2019-10-08
gmungoc
Merge branch 'develop' into Jalview-JS/develop
tree
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commitdiff
2019-09-26
gmungoc
JAL-2481 remove code duplication left by merge
tree
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commitdiff
2019-08-22
gmungoc
Merge branch 'develop' into feature/JAL-3121gffAttributeMap
tree
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commitdiff
2019-08-22
gmungoc
JAL-3187 case-insensitive codon variant calculation
tree
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commitdiff
2019-08-22
gmungoc
JAL-3121 round trip GFF attributes including map-valued...
tree
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commitdiff
2019-08-21
gmungoc
JAL-3187 minor code tidying, todo removal
tree
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commitdiff
2019-08-07
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-07-30
gmungoc
JAL-3198 more efficient Sequence.getDisplayId()
tree
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commitdiff
2019-07-26
gmungoc
Merge branch 'features/JAL-3375vcfValidation' into
tree
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commitdiff
2019-07-25
gmungoc
JAL-3375 ignore '.' values for VCF data
tree
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commitdiff
2019-07-16
gmungoc
JAL-3210 Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-07-08
gmungoc
JAL-3187 derived peptide variants tweaks and tests
tree
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commitdiff
2019-07-05
gmungoc
JAL-3187 initial refactoring towards peptide variant...
tree
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commitdiff
2019-06-17
gmungoc
JAL-2792 JAL-3187 linked features (if shown) in Feature...
tree
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commitdiff
2019-06-17
gmungoc
JAL-3187 add sequence to feature details table (and...
tree
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commitdiff
2019-06-13
gmungoc
JAL-3303 ignore deletions when computing peptide variants
tree
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commitdiff
2019-06-11
gmungoc
JAL-3187 CDS has same dataset sequence as transcript
tree
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commitdiff
2019-06-10
gmungoc
JAL-3296 ensure sequence cursor reset when sequence...
bug/JAL-3296changeStartInvalidateCursor
tree
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commitdiff
2019-06-07
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-07
gmungoc
JAL-2738 use GeneLocus extends DBRefEntry to hold chrom...
tree
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commitdiff
2019-06-06
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-04-18
hansonr
minor code clean up
tree
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commitdiff
2019-04-18
hansonr
minor code clean up
tree
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commitdiff
2019-04-03
hansonr
j2sNative clean-up. Fixes problem with second try of...
tree
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commitdiff
2019-03-21
Ben Soares
JAL-3130 Replaced deprecated Class.newInstance() with...
tree
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commitdiff
2019-03-20
Ben Soares
JAL-3130 Lots of deprecation fixes. See utils/deprecat...
tree
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commitdiff
2019-03-13
gmungoc
Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-03-11
gmungoc
Merge branch 'feature/JAL-3127_seqidChainshading' into...
tree
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commitdiff
2019-03-05
gmungoc
Merge remote-tracking branch 'origin/bug/JAL-2839findWi...
tree
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commitdiff
2019-03-04
gmungoc
Merge branch 'bug/JAL-3072scrollThread' into merge...
tree
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commitdiff
2019-03-04
gmungoc
Merge remote-tracking branch 'origin/bug/JAL-3082select...
tree
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commitdiff
2019-03-04
gmungoc
Merge branch 'bug/JAL-3099alignmentVisibleWidth' into...
tree
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commitdiff
2019-03-01
gmungoc
Merge branch 'bug/JAL-3164complementOverview' into...
tree
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commitdiff
2019-03-01
gmungoc
Merge branch 'feature/intervalStoreJ' into merge/JAL...
tree
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commitdiff
2019-03-01
gmungoc
JAL-3140 reduced coupling to intervalstore.jar
feature/intervalStoreJ
tree
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commitdiff
2019-02-28
gmungoc
JAL-3140 confine intervalstore imports to jalview.datam...
tree
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commitdiff
2019-02-24
gmungoc
JAL-3198 SequenceGroup 'bulk constructor' without dupli...
tree
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commitdiff
2019-02-21
gmungoc
JAL-3187 handle no mapping / complement features withou...
tree
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commitdiff
2019-02-20
gmungoc
JAL-3187 read peptide variant from CSQ:HGVSp if present...
tree
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commitdiff
2019-02-19
gmungoc
JAL-3187 hacks to get peptide variant in to Jmol hover...
tree
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commitdiff
2019-02-04
hansonr
refactoring for DBMODList
tree
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commitdiff
2019-01-29
hansonr
iterators
tree
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commitdiff
2019-01-26
hansonr
Platform.timecheck calls removed or commented out.
tree
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commitdiff
2019-01-26
hansonr
removing cyclic call
tree
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commitdiff
2019-01-26
hansonr
Jalview.isJS() --> Platform.isJS(), DBRefEntry[] -...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 unit tests updated and errors caught
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 findFeaturesAtResidue answer in render order...
tree
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commitdiff
2019-01-21
gmungoc
JAL-3187 (hacked up) show complement features on struct...
tree
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commitdiff
2019-01-17
gmungoc
Merge branch 'develop' into Jalview-BH/JAL-3026-JAL...
tree
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commitdiff
2019-01-16
Jim Procter
Merge branch 'features/pca_jaxb_datasetrefs_JAL-3171_JA...
tree
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commitdiff
2018-12-19
Jim Procter
Merge branch 'features/JAL-1767pcaInProject' into bug...
tree
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commitdiff
2018-12-17
Jim Procter
Merge branch 'bug/JAL-2750' into develop
tree
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commitdiff
2018-12-17
Jim Procter
Merge branch 'develop' into bug/JAL-2541cutRelocateFeatures
tree
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commitdiff
2018-12-06
Ben Soares
JAL-3130 incorporating feature/JAL-3063jaxbNoCastor...
tree
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commitdiff
2018-11-29
gmungoc
JAL-3140 NCList now via IntervalStore library
tree
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commitdiff
2018-11-28
gmungoc
JAL-3164 redraw complement overview on hide columns
bug/JAL-3164complementOverview
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3156 JAL-3127 code tidy
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3156 javadoc re JAL-3127 and FIXME to make Alignmen...
tree
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commitdiff
2018-10-17
Jim Procter
Merge branch 'feature/JAL-3063JAXB' into Jalview-BH...
tree
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commitdiff
2018-09-14
gmungoc
JAL-3116 parse EMBL XML with JAXB (todo: update unit...
tree
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commitdiff
2018-09-13
gmungoc
JAL-3116 Uniprot XML unmarshalled using JAXB not Castor
tree
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commitdiff
2018-09-11
Jim Procter
Merge branch 'develop' into releases/Release_2_11_Branch
tree
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commitdiff
2018-09-10
gmungoc
JAL-3099 new method AlignmentI.getVisibleWidth()
tree
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commitdiff
2018-08-27
Ben Soares
JAL-3061 / JAL-3053
tree
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commitdiff
2018-08-16
gmungoc
Merge branch 'bug/JAL-3082selectRegex' into Jalview...
tree
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commitdiff
2018-08-16
gmungoc
JAL-3082 handle regex error, exclusive threshold, unit...
tree
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commitdiff
2018-08-10
gmungoc
JAL-3076 refactor for more efficient scan of 'gene...
tree
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commitdiff
2018-08-02
Ben Soares
JAL-3053
tree
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commitdiff
2018-07-30
bsoares
Fixed bug ignoring "alpha" extended braces in RNA SS...
tree
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commitdiff
2018-07-26
gmungoc
Merge remote-tracking branch 'origin/bug/JAL-3072scroll...
tree
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commitdiff
2018-07-25
gmungoc
JAL-3074 don't scroll up/down on drag out of scale...
tree
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commitdiff
2018-07-20
gmungoc
JAL-3048 revised AlignExportSettings dialog with respon...
tree
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commitdiff
2018-07-11
Jim Procter
JAL-3048 refactored export settings to bean+dialog...
Jalview-BH/JAL-3048_exportSettingsrefactor
tree
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commitdiff
2018-07-06
gmungoc
JAL-3032 use Math.min/max not Float.min/max
tree
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commitdiff
2018-07-02
hansonr
JAL-3026 GD#75 Stockholm file load fails
tree
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commitdiff
2018-06-22
gmungoc
JAL-3032 avoid assignments on the same line as synchronized
tree
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commitdiff
2018-06-04
Jim Procter
JAL-3017 parse multiple variant elements for uniprot...
tree
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commitdiff
2018-06-02
Jim Procter
JAL-3017 parse multiple variant elements for uniprot...
tree
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commitdiff
2018-05-31
gmungoc
JAL-2808 don't capture or report min-max for mixed...
tree
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commitdiff
2018-05-28
gmungoc
Merge remote-tracking branch 'origin/releases/Release_2...
tree
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commitdiff
2018-05-21
gmungoc
JAL-2920 use HGVS notation for protein variant feature
tree
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commitdiff
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