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JAL-2507 fix test: knockon from capitalisation on secondary structure from stockholm...
[jalview.git]
/
src
/
jalview
/
2017-05-15
Jim Procter
JAL-2507 capitalisation for annotation lines generated...
tree
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commitdiff
2017-05-15
Jim Procter
JAL-2507 case insensitive recognition of annotation...
tree
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commitdiff
2017-05-15
Jim Procter
JAL-2535 quick hack to implement posterior probabilitie...
tree
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commitdiff
2017-05-11
Jim Procter
JAL-2509 JAL-2507 allow whitespace in GS annotation...
tree
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commitdiff
2017-05-11
Jim Procter
JAL-2507 test if an annotation is ‘whitespace’
tree
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commitdiff
2017-05-11
Jim Procter
JAL-2507 Annotation.EMPTY_ANNOTATION - non-null whitesp...
tree
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commitdiff
2017-05-09
Jim Procter
JAL-2509 extend set of brackets recognised by stockholm...
tree
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commitdiff
2017-05-09
Jim Procter
JAL-2507 unpaired RNA marked as ‘ ‘ in Stockholm SS...
tree
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commitdiff
2017-05-09
Jim Procter
JAL-2507 output secondary structure regardless of prese...
tree
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commitdiff
2017-05-09
gmungoc
JAL-1632 correct i18n and NPE
tree
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commitdiff
2017-05-08
gmungoc
JAL-1632 i18n for warning messages
tree
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commitdiff
2017-05-08
gmungoc
Merge remote-tracking branch 'origin/bug/JAL-2515'...
tree
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commitdiff
2017-05-08
kiramt
JAL-2515 Id panel in applet updated for NPE on urlProvider
bug/JAL-2515
tree
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commitdiff
2017-05-08
kiramt
JAL-2512 And applet
tree
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commitdiff
2017-05-08
kiramt
JAL-2512 Fix to show non-gap positions in None colour...
tree
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commitdiff
2017-05-04
gmungoc
JAL-2506 allow graduated colour as default in new Seque...
tree
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commitdiff
2017-05-04
gmungoc
JAL-2510 ensure modified feature type is displayed
tree
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commitdiff
2017-05-04
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-05-04
gmungoc
JAL-2504 allow feature type to be specified for Create...
tree
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commitdiff
2017-05-04
Jim Procter
Merge branch 'bug/JAL-2507_rnasecstrstockholmoutput...
tree
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commitdiff
2017-05-04
Jim Procter
Merge branch 'features/JAL-2503_filteronquantitativeann...
tree
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commitdiff
2017-05-04
Jim Procter
Merge branch 'features/JAL-2393customMatrices' into...
tree
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commitdiff
2017-05-04
Jim Procter
fix for JAL-2509 - don’t replace all bracket types...
tree
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commitdiff
2017-05-04
Jim Procter
fix for JAL-2507 - resolve stockholm per residue annota...
tree
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commitdiff
2017-05-04
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-05-04
Jim Procter
Merge branch 'features/JAL-2503_filteronquantitativeann...
tree
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commitdiff
2017-05-04
Jim Procter
Merge branch 'features/JAL-2393customMatrices' into...
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2393 JAL-2416 refresh the score model menu when...
features/JAL-2393customMatrices
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2503 show threshold slider for quantitative annotat...
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2503 AlignmentAnnotation.isQuantitative() test
tree
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commitdiff
2017-05-03
Jim Procter
Merge branch 'features/JAL-2432_annotbypercent' into...
tree
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commitdiff
2017-05-03
Jim Procter
JAL-1933 JAL-2501 i18n for all auto calculated descriptions
features/JAL-2432_annotbypercent
tree
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commitdiff
2017-05-03
Jim Procter
JAL-1933 show occupancy in tooltip for row
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2432 honour percentage checkbox when entering value...
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2432 applet: only enable percent checkbox when...
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2432 percentage checkbox follows threshold value...
tree
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commitdiff
2017-05-03
gmungoc
JAL-2105 Ensembl REST now at 5.0
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2432 recover state for ‘display percentage’ checkbox
tree
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commitdiff
2017-05-03
Jim Procter
JAL-2432 simplify code
tree
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commitdiff
2017-05-02
Jim Procter
JAL-1632 validate CalculationChooser when selection...
tree
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commitdiff
2017-05-02
Jim Procter
JAL-1632 enable/disable CalculationChooser buttons...
tree
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commitdiff
2017-05-02
Jim Procter
JAL-1632 compare size of input against minimums for...
tree
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commitdiff
2017-05-02
Jim Procter
JAL-1632 OK->Calculate, Cancel->Close buttons
tree
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commitdiff
2017-05-02
Jim Procter
JAL-1632 removed ‘tree’ option and changed dialog layout
tree
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commitdiff
2017-05-02
Jim Procter
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-05-02
Jim Procter
Merge branch 'bug/JAL-2424getVisibleContigs' into develop
tree
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commitdiff
2017-05-02
gmungoc
JAL-2499 inlined two 1-line methods
tree
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commitdiff
2017-05-02
gmungoc
JAL-2499 JAL-2403 push 'configure for view' inside...
tree
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commitdiff
2017-05-02
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-05-01
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-05-01
tcofoegbu
JAL-2482 bug fix
tree
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commitdiff
2017-05-01
gmungoc
JAL-2489 JAL-2371 reinstate calls to
tree
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commitdiff
2017-04-28
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 use constant for preference token
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 consensus calculation doesn’t depend on occupa...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 desktop preferences for occupancy
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 showOccupancy applet parameter and SHOW_OCCUPA...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 only create and add occupancy row to alignment...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 fix: updated behaviour for SequenceGroup.findA...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 fixed behaviour for null parameters in line...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2494 javadoc for AnnotatedCollectionI.findAnnotations
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2432 desktop: filter/select columns by threshold...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 JAL-2432 code tidy
tree
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commitdiff
2017-04-27
Jim Procter
JAL-2432 left justify value shown after adjusting thres...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 JAL-2432 percentile filter for select/hide...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 shade occupancy from light grey to black for...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 don’t show symbol counts under histogram ...
tree
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commitdiff
2017-04-27
Jim Procter
JAL-1933 occupancy row has a space below it for counts
tree
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commitdiff
2017-04-25
tcofoegbu
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-04-25
tcofoegbu
JAL-2489 bug fix
tree
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commitdiff
2017-04-24
gmungoc
JAL-2487 remove redundant refreshGUI to minimise thread...
tree
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commitdiff
2017-04-24
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-24
gmungoc
JAL-2424 final contig now an inclusive range
bug/JAL-2424getVisibleContigs
tree
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commitdiff
2017-04-24
kiramt
JAL-2439 Fixed opposite out-by-one problem in wrapped...
tree
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commitdiff
2017-04-24
kiramt
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2017-04-24
kiramt
JAL-2439 Fix to hidden column marker being one row...
tree
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commitdiff
2017-04-21
gmungoc
JAL-2423 tweak tree panel title, add Spanish text
tree
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commitdiff
2017-04-21
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-21
tcofoegbu
JAL-2485 Bug fix to filter out uniprot response header...
tree
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commitdiff
2017-04-19
tcofoegbu
JAL-2482 added null check
tree
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commitdiff
2017-04-18
tcofoegbu
JAL-2482 Bugfix
tree
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commitdiff
2017-04-12
gmungoc
JAL-1632 removed check for aligned sequences for Tree...
tree
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commitdiff
2017-04-12
gmungoc
JAL-1632 remove unused check for sequences aligned
tree
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commitdiff
2017-04-12
gmungoc
JAL-2403 ensure array held in Matrix is immutable
tree
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commitdiff
2017-04-12
gmungoc
JAL-2403 public static methods to convert distance...
tree
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commitdiff
2017-04-12
gmungoc
JAL-1632 one PCA/Tree per panel, closed when panel...
tree
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commitdiff
2017-04-11
tcofoegbu
Pull from develop
features/JAL-2473_set-minimium-dimensions
tree
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commitdiff
2017-04-11
gmungoc
JAL-2403 improved ScoreModelI hierarchy as per Kira...
tree
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commitdiff
2017-04-11
tcofoegbu
JAL-2473 removed unused fields in JalviewDialog
tree
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commitdiff
2017-04-11
gmungoc
JAL-2428 Javadoc
tree
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commitdiff
2017-04-11
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-10
gmungoc
JAL-2403 unit tests for PCA.computeSimilarity, signatur...
tree
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commitdiff
2017-04-10
tcofoegbu
Merge branch 'bug/JAL-2255_seq-fetcher-broken-on-linux...
tree
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commitdiff
2017-04-10
tcofoegbu
JAL-2255 Bug fix
bug/JAL-2255_seq-fetcher-broken-on-linux
tree
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commitdiff
2017-04-10
tcofoegbu
Merge branch 'develop' into bug/JAL-2255_seq-fetcher...
tree
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commitdiff
2017-04-10
gmungoc
JAL-2403 removed remaining jvCalcMode references from PCA
tree
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commitdiff
2017-04-10
gmungoc
Merge branch 'develop' into features/JAL-2393customMatrices
tree
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commitdiff
2017-04-10
tcofoegbu
JAL-2473 added improvement to apply default / custom...
tree
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commitdiff
2017-04-10
gmungoc
JAL-2361 option to save on OK of changed named colour...
tree
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commitdiff
2017-04-09
gmungoc
JAL-2393 remove unused commented code
tree
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commitdiff
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