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JAL-4159 implement bounds for PASIMAP calculation - from 9 to 20000 sequences.
[jalview.git]
/
src
/
jalview
/
datamodel
/
AlignmentAnnotation.java
2023-11-02
James Procter
JAL-1551 formatting
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commitdiff
2023-08-10
Ben Soares
JAL-629 Change all stdout and stderr output to use...
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2023-05-25
James Procter
JAL-4134 popup menu and annotation row property to...
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diff to current
2023-05-22
James Procter
JAL-1551 spotless
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2023-05-19
James Procter
JAL-1551 spotlessApply
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diff to current
2023-05-19
James Procter
JAL-1551 spotlessApply
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diff to current
2023-02-22
James Procter
JAL-4027 JAL-3858 rename CUSTOM_RENDERER to CONTACT_MAT...
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diff to current
2023-01-11
Ben Soares
JAL-629 refactoring TFType. Remove i18n identification...
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diff to current
2022-12-05
Ben Soares
JAL-629 implementation of --tempfac options
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diff to current
2022-10-17
Jim Procter
JAL-1551 formatting
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diff to current
2022-06-10
Jim Procter
Merge branch 'features/r2_11_2_alphafold/JAL-2349_JAL...
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diff to current
2022-04-16
Jim Procter
JAL-3365 expand range of allowed DSSP secondary structu...
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diff to current
2022-03-08
Jim Procter
JAL-3438 spotless for 2.11.2.0
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2022-02-16
Jim Procter
Merge branch 'develop' into features/r2_11_2_alphafold...
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2021-09-21
Ben Soares
JAL-3691 automatic insertion of Locale.ROOT to toUpperC...
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diff to current
2019-06-18
Jim Procter
Merge branch 'features/JAL-2349_matrixvis' into merge...
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diff to current
2019-03-20
Ben Soares
JAL-3130 Lots of deprecation fixes. See utils/deprecat...
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diff to current
2018-08-02
Ben Soares
JAL-3053
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2018-07-30
bsoares
Fixed bug ignoring "alpha" extended braces in RNA SS...
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2018-02-06
kiramt
Merge branch 'develop' into feature/JAL-2759
feature/JAL-2759
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2018-01-16
kiramt
JAL-2759 Moved alignment annotation code out of HiddenC...
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2017-11-22
gmungoc
JAL-2069 spike updated with latest (FeatureTypeSettings)
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2017-11-10
Jim Procter
JAL-2828 allow CalcId to match on String equivalence...
doc/JAL-2494_JAL-2828_mergefindAnnotation
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2017-11-10
Jim Procter
JAL-2828 refactored duplicate code for searching lists...
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2017-10-27
gmungoc
JAL-1793 spike branch updated to latest
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2017-10-03
gmungoc
JAL-2738 copy to spikes/mungo
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2017-09-01
gmungoc
JAL-2488 remove finalize methods
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2017-08-21
gmungoc
Merge branch 'develop' into features/JAL-2446NCList
features/JAL-2446NCList
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2017-08-16
Jim Procter
JAL-2418 source formatting
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2017-06-09
gmungoc
JAL-2446 merged to spike branch
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2017-06-09
Jim Procter
Merge branch 'develop' into features/JAL-2349_matrixvis
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2017-05-16
gmungoc
JAL-2505 set helix number as feature group in SequenceF...
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2017-05-05
kiramt
Merge remote-tracking branch 'origin/develop' into
features/JAL-2388hiddencolumnschanges
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2017-05-03
Jim Procter
JAL-2503 AlignmentAnnotation.isQuantitative() test
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2017-04-24
kiramt
JAL-2388 Hidden cols separated from column selection...
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2017-03-30
gmungoc
Merge branch 'develop' into bug/JAL-2346annotationChoice
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2016-12-04
Jim Procter
JAL-2348 custom renderer type
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2016-12-02
gmungoc
JAL-2346 unit test for annotation drop-down list builder
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2016-12-01
Jim Procter
JAL-1933 update the bounds for the Gap annotation row...
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2016-10-25
Jim Procter
JAL-2089 patch broken merge to master for Release 2...
releases/Release_2_10_0_Branch
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2016-10-06
Jim Procter
JAL-2089 Merge branch releases/Release_2_10_Branch...
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2016-10-05
Jim Procter
JAL-2189 source formatting
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2016-08-16
gmungoc
JAL-2171 matching bracket default character for rna...
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2016-08-12
gmungoc
JAL-1841 bug fixes / code tidy for rna SS rendering...
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2015-11-16
tcofoegbu
JAL-1967 JAL-1479 refactored sequence<->structure mappi...
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2015-10-16
Jim Procter
JAL-1925 update source version in license
Release_2_9_0b2
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2015-10-08
Jim Procter
JAL-1894 update year/version in copyright
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2015-10-08
Jim Procter
Merge branch 'develop' into Release_2_9_0b1_Branch
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2015-10-07
Jim Procter
JAL-1912 formatting
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diff to current
2015-10-07
Jim Procter
JAL-1912 javadoc for adjustForAlignment stating current...
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2015-10-07
Jim Procter
JAL-1912 efficiency: look up sequenceMapping once per...
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2015-10-05
tcofoegbu
JAL-1912 added null check for SequenceMapping variable...
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2015-10-01
tcofoegbu
JAL-1912 Double.NaN breaks JSON serialization - added...
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2015-09-10
Jim Procter
JAL-1645 Version-Rel Version 2.9 Year-Rel 2015 Licensin...
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2015-09-10
Jim Procter
JAL-1645 source formatting and organise imports
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2015-06-18
gmungoc
JAL-1781 annotation.sequenceRef now sequence id not...
features/JAL-1781annotationXmlIds
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2015-06-15
Jim Procter
JAL-1775 patch for regression from Anne Menard’s pseudo...
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diff to current
2015-06-15
Jim Procter
JAL-1775 patch for regression from Anne Menard’s pseudo...
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2015-06-15
Jim Procter
JAL-1775 patch regression bug when displayChar is null...
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diff to current
2015-06-15
Jim Procter
fix for JAL-1775 (and reorganise imports)
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diff to current
2015-06-15
Jim Procter
JAL-1775 patch regression bug when displayChar is null...
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diff to current
2015-06-15
Jim Procter
fix for JAL-1775 (and reorganise imports)
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2015-05-12
gmungoc
JAL-1712 fixes/tests for Castor binding and 'show flank...
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2015-03-26
gmungoc
Merge develop to Release_2_8_3_Branch
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2015-03-06
Jim Procter
JAL-1683 replace year/version strings with tokens in...
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2014-12-22
Jim Procter
Merge: 497958b 68dcaa7
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diff to current
2014-12-15
Jim Procter
JAL-1620 version bump and release notes
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2014-11-24
Jim Procter
JAL-1595 annotation score is total number of rna helices
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diff to current
2014-11-21
Jim Procter
JAL-1489 change initial value to distinguish non-rna...
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2014-11-20
Jim Procter
JAL-1569 rna pair code in secondary structure character...
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diff to current
2014-11-20
Jim Procter
JAL-674 JAL-1569 mark RNA helix number in the value...
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diff to current
2014-11-03
Jim Procter
JAL-1578 formatting and imports
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diff to current
2014-11-03
Jim Procter
JAL-1551 formatting
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diff to current
2014-11-03
Jim Procter
JAL-674 JAL-961 JAL-1578 accessors and copy constructor...
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2014-11-03
Jim Procter
javadoc
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2014-10-31
Jim Procter
JAL-674 JAL-961 properties to stash additional informat...
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2014-10-30
Jim Procter
JAL-674 helpful javadoc for remap method
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2014-10-29
Jim Procter
JAL-674 JAL-1264 remap method to allow annotation posit...
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diff to current
2014-10-21
Jim Procter
JAL-1551 source formatting
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2014-10-15
Jim Procter
JAL-348 JAL-674 JAL-1564 TODO and implementation error...
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diff to current
2014-10-15
Jim Procter
JAL-674 patch logic to test whether old and new sequenc...
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diff to current
2014-10-15
Jim Procter
JAL-674 JAL-1305 JAL-348 new liftOver method and test...
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diff to current
2014-07-18
j.procter@dundee...
JAL-1520 switch between Protein and non-canonical RNA...
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diff to current
2014-06-06
Jim Procter
JAL-1520 fix unicode translation errors.
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diff to current
2014-06-06
Jim Procter
JAL-1517 source formatting
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diff to current
2014-06-06
Jim Procter
JAL-1517 fix copyright for 2.8.2
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diff to current
2014-06-05
Jim Procter
JAL-1517 update copyright to version 2.8.2
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2014-06-05
Jim Procter
Merge branch 'docs/2_8_1_Release' into Release_2_8_2_Branch
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2014-05-22
Jim Procter
JAL-1503 update version in GPL header
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2014-02-18
Jim Procter
Merge branch 'JAL-1445' into develop
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2014-01-29
Jim Procter
JAL-1432 updated copyright notices
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2012-12-07
jprocter
revised renderer and annotation model to support differ...
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diff to current
2012-12-07
jprocter
convenience function to get the RNA model for an annota...
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diff to current
2012-12-07
jprocter
use new secstructure process algorithm
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diff to current
2012-11-15
jprocter
Merge branch 'develop' into menard
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commitdiff
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diff to current
2012-10-22
jprocter
Jalview 2.8 Source Header
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diff to current
2012-10-03
jprocter
formatting
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diff to current
2012-09-03
jprocter
JAL-1153 ensure _linecolour is copied in copy constructor
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2012-08-31
jprocter
Merge branch 'develop' into menard
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2012-08-29
jprocter
JAL-1153 new runtime property set to first non-null...
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