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JAL-3878 update branch from 2.12 merge from 2.11.2
[jalview.git]
/
src
/
jalview
/
schemes
/
2022-12-14
Jim Procter
Merge branch 'develop' into update_212_Dec_merge_with_2...
tree
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commitdiff
2022-12-13
Jim Procter
Merge branch 'alpha/origin_2022_JAL-3066_Jalview_212_sl...
tree
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commitdiff
2022-11-21
Jim Procter
Merge commit 'alpha/update_2_12_for_2_11_2_series_merge...
tree
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commitdiff
2022-05-12
Ben Soares
JAL-4014 4 gecos colour schemes added
tree
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commitdiff
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
tree
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commitdiff
2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
tree
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commitdiff
2021-09-15
gmungoc
JAL-3788 synchronize concurrent findColour() and alignm...
tree
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commitdiff
2021-09-02
gmungoc
JAL-3509 coerce RESNUM to hidden (really) after fetchin...
tree
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commitdiff
2021-07-22
Jim Procter
JAL-3853 JAL-1870 patch tests for annotation colour...
tree
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commitdiff
2020-12-14
Jim Procter
Merge branch 'Jalview-JS/develop' into merge_js_develop
tree
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commitdiff
2020-06-03
BobHanson
JAL-3446 from JAL-3253 ApplicationSingletonProvider
tree
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commitdiff
2020-05-18
Jim Procter
Merge branch 'alpha/JAL-3362_Jalview_212_alpha' into...
tree
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commitdiff
2020-02-06
gmungoc
JAL-3509 coerce RESNUM to hidden (really) after fetchin...
tree
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commitdiff
2019-09-26
Jim Procter
JAL-3070 JAL-3066 JAL-2808 allow feature filter definit...
tree
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commitdiff
2019-07-16
gmungoc
JAL-3210 Merge branch 'develop' into trialMerge
tree
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commitdiff
2019-07-11
Thomas
JAL-2629 hmm search UI and structural improvements...
tree
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commitdiff
2019-07-02
tva
JAL-2629 hmm match score colour scheme now colours...
tree
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commitdiff
2019-06-28
tva
JAL-2629 add ability to add background frequencies...
tree
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commitdiff
2019-06-28
tva
JAL-2629 add file that should have been in previous...
tree
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commitdiff
2019-06-28
tva
JAL-2629 add HMM Match Score colour scheme
tree
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commitdiff
2019-06-06
tva
JAL-3285 code changes to HMMER colour schemes not inclu...
tree
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commitdiff
2019-06-04
Jim Procter
Merge branch 'develop' into developtomchmmer
tree
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commitdiff
2019-04-04
gmungoc
JAL-3220 j2sIgnore on main methods on test / utility...
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
2019-03-19
Ben Soares
JAL-3130 Merge of JAL-3130_Java_11_investigations-Ben...
tree
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commitdiff
2019-03-12
gmungoc
Merge branch 'feature/JAL-3127_seqidChainshading' into...
tree
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commitdiff
2019-03-12
gmungoc
JAL-3127 check for null viewport
feature/JAL-3127_seqidChainshading
tree
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commitdiff
2019-03-11
gmungoc
Merge branch 'feature/JAL-3127_seqidChainshading' into...
tree
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commitdiff
2019-03-11
gmungoc
JAL-3206 strict above/below threshold test restored
tree
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commitdiff
2019-03-07
gmungoc
Merge branch 'feature/JAL-3180colourAnnotationMenu...
tree
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commitdiff
2019-03-07
Ben Soares
JAL-3130 deprecation change preparation
tree
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commitdiff
2019-03-05
gmungoc
Merge remote-tracking branch 'origin/features/JAL-2620a...
tree
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commitdiff
2019-03-05
gmungoc
Merge remote-tracking branch 'origin/bug/JAL-3049colour...
tree
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commitdiff
2019-03-04
gmungoc
JAL-3206 avoid divide by zero when threshold is graphMi...
tree
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commitdiff
2019-03-04
gmungoc
Merge branch 'bug/JAL-3120restoreFeatureColour' into...
tree
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commitdiff
2019-03-01
gmungoc
Merge branch 'bug/JAL-2791exportFilteredFeature' into...
tree
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commitdiff
2019-02-28
gmungoc
Merge remote-tracking branch 'origin/feature/JAL-3141_b...
tree
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commitdiff
2019-02-28
Jim Procter
Merge branch 'feature/JAL-3141_backupfiles_for211'...
merge/develop_feature/JAL-3141_backupfiles_for211
tree
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commitdiff
2019-02-25
gmungoc
JAL-3200 fast lookup of DSSP3 notation
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
2019-01-04
gmungoc
JAL-3180 fix By Annotation selection state in colour...
tree
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commitdiff
2018-12-06
Ben Soares
JAL-3130 incorporating feature/JAL-3063jaxbNoCastor...
tree
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commitdiff
2018-12-03
gmungoc
JAL-3063 Castor removed from codebase
tree
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commitdiff
2018-12-03
gmungoc
Merge branch 'feature/JAL-3063JAXB' into feature/JAL...
tree
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commitdiff
2018-11-20
Jim Procter
JAL-3127 Sequence ID Colour and nominal spanish translation
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3127 javadoc, don’t darken white when shading resid...
tree
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commitdiff
2018-11-19
Jim Procter
JAL-3127 drop redundant hidden representative sequences...
tree
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commitdiff
2018-11-01
gmungoc
Merge branch 'feature/JAL-3143ensemblJSON' into
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
2018-10-16
Jim Procter
JAL-3127 always look up sequence ID colour from view...
tree
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commitdiff
2018-10-09
Jim Procter
JAL-3127 Colour sequences by ID - need to check that...
tree
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commitdiff
2018-10-09
Jim Procter
JAL-3127 pass reference to AlignViewportI when creating...
tree
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commitdiff
2018-09-27
gmungoc
JAL-2791 new method to test if feature fails colour...
tree
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commitdiff
2018-09-21
gmungoc
JAL-3120 preserve feature colour/mincolour/maxcolour...
bug/JAL-3120restoreFeatureColour
tree
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commitdiff
2018-09-20
gmungoc
JAL-2843 help text for colour by attribute, feature...
tree
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commitdiff
2018-09-18
gmungoc
JAL-3063 Save/Load user defined colours using JAXB
tree
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commitdiff
2018-06-29
gmungoc
JAL-3049 JAL-2069 colour icon tooltip including by...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-1958 use the annotation score for the sequence...
tree
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commitdiff
2018-05-31
Jim Procter
JAL-1950 JAL-1958 disable per-row score modulation...
tree
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commitdiff
2018-05-31
Jim Procter
Merge branch 'spike/JAL-1950_hmmer3client' into feature...
tree
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commitdiff
2018-05-31
Jim Procter
Merge branch 'develop' into spike/JAL-1950_hmmer3client
tree
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commitdiff
2018-04-17
gmungoc
JAL-2629 choice of hmm profile now a parameter not...
tree
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commitdiff
2018-04-16
gmungoc
JAL-2629 JAL-2937 remove redundant is/setHMMConsensusSe...
tree
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commitdiff
2018-03-30
gmungoc
JAL-2938 revisions to implementation details
tree
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commitdiff
2018-03-23
gmungoc
JAL-2938 update colour schemes enum for class name...
tree
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commitdiff
2018-03-23
gmungoc
JAL-2938 extracted base class for Hmmer colour schems
tree
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commitdiff
2018-03-16
gmungoc
JAL-2620 alternative genetic code translation tables
tree
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commitdiff
2018-03-07
gmungoc
JAL-2629 storage and lifecycle of alignment/group HMM...
tree
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commitdiff
2018-02-27
gmungoc
JAL-2668 method name change for clarity
tree
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commitdiff
2018-02-27
gmungoc
JAL-2668 fix broken factory method for colour scheme
tree
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commitdiff
2018-02-27
gmungoc
JAL-2717 JAL-2668 fixes to HMMER colour scheme display...
tree
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commitdiff
2018-02-20
gmungoc
Merge branch 'develop' into features/mchmmer
tree
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commitdiff
2018-01-30
gmungoc
JAL-1793 update spike build to latest incl stop and...
tree
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commitdiff
2018-01-30
gmungoc
JAL-2898 show 'stop_gained' variants on peptide sequences
tree
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commitdiff
2018-01-10
gmungoc
JAL-1793 update spike branch to latest
tree
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commitdiff
2017-12-11
gmungoc
JAL-2843 add colour by attribute, and no value colour...
tree
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commitdiff
2017-11-22
gmungoc
JAL-2069 spike updated with latest (FeatureTypeSettings)
tree
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commitdiff
2017-11-22
gmungoc
JAL-2069 Javadoc added only
tree
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commitdiff
2017-11-16
gmungoc
JAL-2069 removed unused and redundant thresholdIsMinMax
tree
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commitdiff
2017-11-15
gmungoc
JAL-2816 exclude filtered / thresholded out features...
tree
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commitdiff
2017-11-15
gmungoc
JAL-2835 spike updated with latest
tree
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commitdiff
2017-11-15
gmungoc
JAL-2835 support filter/colour by nested attribute...
tree
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commitdiff
2017-11-07
gmungoc
JAL-2069 update spike with latest
tree
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commitdiff
2017-11-07
gmungoc
JAL-2069 corrected overloaded constructor behaviour
tree
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commitdiff
2017-11-07
gmungoc
JAL-2069 update spike branch with latest
tree
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commitdiff
2017-11-07
gmungoc
JAL-2069 add attributeName and noValueColour to Feature...
tree
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commitdiff
2017-11-02
gmungoc
JAL-2808 reverted to develop (attribute filters removed)
tree
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commitdiff
2017-10-31
gmungoc
JAL-2808 revised util.matcher package, 2 filter conditi...
tree
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commitdiff
2017-10-30
gmungoc
JAL-2808 add attribute filter(s) to FeatureColour
tree
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commitdiff
2017-10-24
gmungoc
JAL-2738 update spike branch with latest
tree
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commitdiff
2017-10-12
Jim Procter
JAL-2773 add new flag to paintAlignment(updateOverview...
features/JAL-2773_dontalwaysrecolourstructureonrepaintofoverview
tree
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commitdiff
2017-10-03
gmungoc
JAL-2738 copy to spikes/mungo
tree
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commitdiff
2017-09-15
Jim Procter
JAL-1950 update colour gradient variables to new, more...
tree
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commitdiff
2017-09-15
Jim Procter
Merge branch 'develop' into trial_merge/JAL-1950
tree
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commitdiff
2017-09-03
Jim Procter
Merge branch 'documentation/JAL-2675_release2102b1...
tree
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commitdiff
2017-08-28
TZVanaalten
JAL-2629 HMMER alignment background colour scheme is...
tree
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commitdiff
2017-08-25
TZVanaalten
JAl-2629 add new HMMER colour scheme class
tree
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commitdiff
2017-08-25
TZVanaalten
JAL-2629 add multiple options for running hmmbuild...
tree
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commitdiff
2017-08-22
Jim Procter
JAL-1950 patch after merge
tree
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commitdiff
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