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JAL-3070 discoverers return ServiceWithParameter, now containing logic and call code...
[jalview.git]
/
src
/
2019-06-28
tva
JAL-2629 add ability to add background frequencies...
tree
|
commitdiff
2019-06-28
Jim Procter
Merge branch 'bug/JAL-3333_Blurry_fonts_in_WebServiceIn...
tree
|
commitdiff
2019-06-28
Ben Soares
JAL-3333 Smooth rotation of image now too
tree
|
commitdiff
2019-06-28
Ben Soares
JAL-3333 added height to rotating image preferred size
tree
|
commitdiff
2019-06-28
tva
JAL-3336 add better method of determining where data...
tree
|
commitdiff
2019-06-28
Jim Procter
JAL-3330 apply Ensembl feature settings when showing...
bug/JAL-3330_backpropagateEnsemblFeatureColours
tree
|
commitdiff
2019-06-28
tva
JAL-3336 fix hmmsearch failing when parsing score table
tree
|
commitdiff
2019-06-28
Ben Soares
JAL-3333 Replaced title text rendered in animated image...
tree
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commitdiff
2019-06-28
tva
JAL-2629 add file that should have been in previous...
tree
|
commitdiff
2019-06-28
tva
JAL-2629 add HMM Match Score colour scheme
tree
|
commitdiff
2019-06-26
Jim Procter
JAL-3334 fix - always load full SO to resolve the seque...
tree
|
commitdiff
2019-06-26
Jim Procter
JAL-3111 get rid of nasty tab characters
tree
|
commitdiff
2019-06-26
Jim Procter
JAL-3332 test to check for duplicate db sources and...
tree
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commitdiff
2019-06-26
Jim Procter
JAL-3330 javadoc
tree
|
commitdiff
2019-06-24
Jim Procter
JAL-3330 merge styles onto originating view after fetch...
tree
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commitdiff
2019-06-24
Jim Procter
JAL-3330 dbreffetcher: record any feature display model...
tree
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commitdiff
2019-06-24
Jim Procter
JAL-3330 merge styles onto originating views when show...
tree
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commitdiff
2019-06-24
Jim Procter
JAL-3330 mergeFeatureStyles - needs test coverage
tree
|
commitdiff
2019-06-19
Ben Soares
Merge branch 'merge/JAL-3310_and_JAL-3300' into develop
tree
|
commitdiff
2019-06-19
Ben Soares
JAL-3321 Last pieces of the getdown-launcher.jar upgrad...
tree
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commitdiff
2019-06-19
Jim Procter
Merge branch 'develop' into documentation/JAL-3111_rele...
tree
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commitdiff
2019-06-18
gmungoc
JAL-3313 don't double count mapped codons
tree
|
commitdiff
2019-06-18
Jim Procter
Merge branch 'bug/JAL-2830_editManglesDatasetSequence...
tree
|
commitdiff
2019-06-18
Ben Soares
Merge branch 'develop' into merge/JAL-3310_and_JAL...
tree
|
commitdiff
2019-06-18
gmungoc
JAL-3187 javadoc
tree
|
commitdiff
2019-06-18
Jim Procter
Merge branch 'bug/JAL-3286duplicatePdbQuery' into develop
tree
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commitdiff
2019-06-18
gmungoc
JAL-3304 option to export linked features also for...
tree
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commitdiff
2019-06-18
Ben Soares
JAL-3312 Fixed SHIFT-CMD/SHIFT-CTRL Key combinations...
tree
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commitdiff
2019-06-18
gmungoc
JAL-3304 option to export linked features in Jalview...
tree
|
commitdiff
2019-06-18
gmungoc
JAL-3187 i18n show linked features checkboxes
tree
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commitdiff
2019-06-18
gmungoc
JAL-3305 mirror popup menu column selections in split...
tree
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commitdiff
2019-06-17
Ben Soares
JAL-3310 JAL-3300 two getdown fixes merged
tree
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commitdiff
2019-06-17
gmungoc
JAL-2792 JAL-3187 linked features (if shown) in Feature...
tree
|
commitdiff
2019-06-17
gmungoc
JAL-3187 update alignAs code and unit tests for 'shared...
tree
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commitdiff
2019-06-17
gmungoc
JAL-3187 add sequence to feature details table (and...
tree
|
commitdiff
2019-06-17
Jim Procter
JAL-3311 remove menus and documentation relating to...
tasks/JAL-3311_removeVamsasMenu
tree
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commitdiff
2019-06-14
Ben Soares
JAL-3295 pre-merged code with JAL-3295 branch which...
tree
|
commitdiff
2019-06-14
Ben Soares
JAL-3278 A system.out.println turned into a cache.log...
tree
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commitdiff
2019-06-14
Jim Procter
JAL-3111 report build type and commit in stdout from...
tree
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commitdiff
2019-06-14
Jim Procter
JAL-3299 JAL-3280 javadoc on BuildDetails bean
tree
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commitdiff
2019-06-14
gmungoc
JAL-3302 transfer visible 'linked' features to Chimera
tree
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commitdiff
2019-06-13
gmungoc
JAL-3303 ignore deletions when computing peptide variants
tree
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commitdiff
2019-06-13
Jim Procter
Merge branch 'bug/JAL-3295_CMD_select_not_working_in_se...
tree
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commitdiff
2019-06-13
gmungoc
JAL-3143 recognise lnc_RNA as transcript
tree
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commitdiff
2019-06-12
Ben Soares
JAL-3295 Fixed CMD-select of sequences in alignment...
tree
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commitdiff
2019-06-11
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-11
gmungoc
JAL-3143 also parse "phase" from JSON response if present
tree
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commitdiff
2019-06-11
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-11
gmungoc
JAL-3288 fixes for gain/lose focus
tree
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commitdiff
2019-06-11
gmungoc
JAL-3187 CDS has same dataset sequence as transcript
tree
|
commitdiff
2019-06-10
tva
JAL-3297 pad gaps in alignment to ensure hmmalign runs
tree
|
commitdiff
2019-06-07
gmungoc
JAL-3187 save and restore flags for show complement...
tree
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commitdiff
2019-06-07
gmungoc
JAL-3187 change fields to local variables
tree
|
commitdiff
2019-06-07
gmungoc
Merge branch 'develop' into feature/JAL-3187linkedFeatures
tree
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commitdiff
2019-06-07
gmungoc
Merge branch 'bug/JAL-3288splitFrameMenusJava11' into...
tree
|
commitdiff
2019-06-07
tva
JAL-3291 issue fixed, passing tests added
tree
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commitdiff
2019-06-07
gmungoc
JAL-3187 Viewport schema attributes for showComplementF...
tree
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commitdiff
2019-06-07
gmungoc
JAL-3251 added optional attributes Sequence.biotype...
tree
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commitdiff
2019-06-07
gmungoc
JAL-2738 use GeneLocus extends DBRefEntry to hold chrom...
tree
|
commitdiff
2019-06-06
tva
JAL-3285 build Jalview XML file for current version
tree
|
commitdiff
2019-06-06
tva
JAL-3285 fix incorrect file paths on HMMAlign/Search...
tree
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commitdiff
2019-06-06
gmungoc
Merge branch 'bug/JAL-3288splitFrameMenusJava11' into...
tree
|
commitdiff
2019-06-06
gmungoc
JAL-3187 deletions (of Castor code) after merge from...
tree
|
commitdiff
2019-06-06
gmungoc
Merge branch 'develop' into trialMerge
tree
|
commitdiff
2019-06-06
tva
JAL-3285 add Cygwin environment path fix for Windows
tree
|
commitdiff
2019-06-06
tva
JAL-3285 code changes to HMMER colour schemes not inclu...
tree
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commitdiff
2019-06-06
tva
JAL-3285 fix FileLoader failing to load HMMER file
tree
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commitdiff
2019-06-05
tva
JAL-3285 method call change tin Information to match...
tree
|
commitdiff
2019-06-05
tva
JAL-3285 delete duplicate variables in AlignmentViewpor...
tree
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commitdiff
2019-06-05
tva
JAL-3285 method call change to HMMBuild not included...
tree
|
commitdiff
2019-06-05
gmungoc
JAL-3288 override JInternalFrame.setSelected() to avoid...
bug/JAL-3288splitFrameMenusJava11
tree
|
commitdiff
2019-06-05
tva
JAL-3285 method call change in SeqPanel to match develop
tree
|
commitdiff
2019-06-05
tva
JAL-3285 change method declaration in AAFrequency to...
tree
|
commitdiff
2019-06-05
tva
JAL-3285 changed method call on AnnotationRenderer...
tree
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commitdiff
2019-06-05
tva
JAL-3285 code changes to Jalview2XML not included in...
tree
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commitdiff
2019-06-05
tva
JAL-3285 add unmerged code to AlignmentAnnotation
tree
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commitdiff
2019-06-05
tva
JAL-3285 method call name change to SeqPanel not includ...
tree
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commitdiff
2019-06-05
tva
JAL-3285 method call name change in OverviewPanel not...
tree
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commitdiff
2019-06-05
tva
JAL-3285 small method call name change to AnnotationLabels
tree
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commitdiff
2019-06-05
tva
JAL-3285 add unmerged code to SequenceGroup
tree
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commitdiff
2019-06-05
tva
JAL-3285 small method call name change missed in Consen...
tree
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commitdiff
2019-06-05
tva
JAL-3285 small code changes to ConsensusThread not...
tree
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commitdiff
2019-06-05
tva
JAL-3285 small code changes to AnnotationRenderer not...
tree
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commitdiff
2019-06-05
tva
JAL-3285 code changes to AnnotationLabels not included...
tree
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commitdiff
2019-06-05
tva
JAL-3285 add unmerged features to AlignViewportI
tree
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commitdiff
2019-06-05
tva
JAL-3285 add unmerged features to AlignViewport
tree
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commitdiff
2019-06-05
tva
JAL-3285 add unmerged features into AlignmentViewport
tree
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commitdiff
2019-06-05
tva
JAL-3285 add methods and small changes to StockholmFile...
tree
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commitdiff
2019-06-04
Jim Procter
Merge branch 'develop' into developtomchmmer
tree
|
commitdiff
2019-06-04
gmungoc
JAL-2386 avoid duplicate pdbids in free text query
bug/JAL-3286duplicatePdbQuery
tree
|
commitdiff
2019-05-31
Ben Soares
JAL-3247 Adjusted Uninstall Old Jalview.app to just...
tree
|
commitdiff
2019-05-29
gmungoc
JAL-2738 error logging if no ##reference found
tree
|
commitdiff
2019-05-29
gmungoc
JAL-2738 accept .csi, default to GRCh37:homo_sapiens...
tree
|
commitdiff
2019-05-28
Ben Soares
JAL-1988 Some TEST code accidentally left in now remove...
tree
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commitdiff
2019-05-27
Ben Soares
JAL-3141 Added HashMap types for Java 1.8 compatibility
tree
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commitdiff
2019-05-27
Ben Soares
Merge branch 'task/JAL-3141_Customise_checkbox' into...
tree
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commitdiff
2019-05-27
Ben Soares
JAL-3141 Object array cast missing
tree
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commitdiff
2019-05-27
Ben Soares
Merge branch 'task/JAL-3247_JAL-3246_JAL-3254_JAL-3236_...
tree
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commitdiff
2019-05-27
Ben Soares
JAL-3141 Generified the JvUtils.buildComboWithTooltips...
tree
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commitdiff
2019-05-25
Ben Soares
JAL-3141 One more error log fix
tree
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commitdiff
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