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Merge branch 'JAL-1569_wuss_vienna_broke' into develop
[jalview.git]
/
src
/
jalview
/
2014-11-24
Jim Procter
Merge branch 'JAL-1569_wuss_vienna_broke' into develop
tree
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commitdiff
2014-11-24
Jim Procter
JAL-1593 refactor rna helix colours to static singleton...
tree
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commitdiff
2014-11-24
Jim Procter
JAL-1264 update annotation panel dimensions before...
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commitdiff
2014-11-24
Jim Procter
JAL-1595 update annotation sort on opening of the ...
tree
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commitdiff
2014-11-24
Jim Procter
JAL-1595 annotation score is total number of rna helices
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commitdiff
2014-11-23
Jim Procter
JAL-1569 interactive editing of secondary structure...
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commitdiff
2014-11-23
Jim Procter
Merge branch 'JAL-1569_wuss_vienna_broke' into develop
tree
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commitdiff
2014-11-23
Jim Procter
employ test and secondary structure character for deter...
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commitdiff
2014-11-23
Jim Procter
JAL-1569 formatting
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commitdiff
2014-11-23
Jim Procter
JAL-1593 allow per-sequence shading of RNA helix (store...
tree
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commitdiff
2014-11-23
Jim Procter
JAL-1569 test for open/close RNA parenthesis character
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commitdiff
2014-11-23
Jim Procter
JAL-1569 formatting
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commitdiff
2014-11-23
Jim Procter
JAL-1569 consistent handling of sequence and alignment...
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commitdiff
2014-11-23
Jim Procter
JAL-1569 formatting
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commitdiff
2014-11-23
Jim Procter
JAL-1569 preserve input ordering for stockholm files...
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commitdiff
2014-11-23
Jim Procter
JAL-1569 remove stdout on parsing RNA
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commitdiff
2014-11-23
Jim Procter
JAL-1152 avoid NPE on null alignment annotation vector
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commitdiff
2014-11-21
Jim Procter
JAL-674 add RNA sequence associated annotation to align...
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commitdiff
2014-11-21
Jim Procter
JAL-1569 formatting
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commitdiff
2014-11-21
Jim Procter
JAL-1140 sensible name for seuqences in RNAML files...
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commitdiff
2014-11-21
Jim Procter
JAL-1489 change initial value to distinguish non-rna...
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commitdiff
2014-11-21
Jim Procter
JAL-1592 JAL-1489 avoid invalid RNA structure and disti...
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commitdiff
2014-11-20
Jim Procter
JAL-1569 rna pair code in secondary structure character...
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commitdiff
2014-11-20
Jim Procter
JAL-674 JAL-1569 mark RNA helix number in the value...
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commitdiff
2014-11-20
Jim Procter
JAL-1569 remove log output during RNA secondary structu...
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commitdiff
2014-11-18
Jim Procter
Merge branch 'JAL-1587_promotedisorder' into develop
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commitdiff
2014-11-18
Jim Procter
JAL-674 make temperature factor, local secondary struct...
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commitdiff
2014-11-17
Jim Procter
JAL-1587 distinct calc IDs for JPredMSA and Jpred singl...
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commitdiff
2014-11-17
Jim Procter
JAL-1587 propagate results of JABA sequence based predi...
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commitdiff
2014-11-17
Jim Procter
imports and formatting
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commitdiff
2014-11-17
Jim Procter
JAL-1587 propagate JPred annotation from legacy jpred...
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commitdiff
2014-11-17
Jim Procter
formatting
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commitdiff
2014-11-17
Jim Procter
JAL-1587 JAL-407 instrument setDataset to add dataset...
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commitdiff
2014-11-17
Jim Procter
Merge branch 'r282_portforward' into develop
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commitdiff
2014-11-17
Jim Procter
Merge branch 'Release_2_8_2_Branch' into mrg_dev_282
tree
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commitdiff
2014-11-17
Charles Ofoegbu
comand line support for svg generation
tree
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commitdiff
2014-11-17
gmungoc
JAL-1580 size parameters dialog to height of Desktop
tree
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commitdiff
2014-11-17
Charles Ofoegbu
JAL-1570 patch to enable adding a webservice which...
tree
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commitdiff
2014-11-17
gmungoc
JAL-1528 Chimera Help doc + fixes to setting colours
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commitdiff
2014-11-17
gmungoc
JAL-1528 new Preference CHIMERA_PATH (Preferences ...
tree
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commitdiff
2014-11-17
gmungoc
JAL-1528 Chimera tidy errors, focus after align, close...
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commitdiff
2014-11-17
gmungoc
JAL-1528 bug fixes and adjustments to Chimera interface
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commitdiff
2014-11-17
Jim Procter
Merge commit '1d9e1c80fb6c0e32313a976ae0065fd32639f2bc...
tree
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commitdiff
2014-11-17
Charles Ofoegbu
comand line support for svg generation
tree
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commitdiff
2014-11-14
Charles Ofoegbu
Merge branch 'feature/JAL-1541_BioJsMSAViewer-export...
tree
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commitdiff
2014-11-14
Charles Ofoegbu
house keeping
features/JAL-1541_BioJsMSAViewer-export-option
tree
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commitdiff
2014-11-14
Charles Ofoegbu
Merge branch 'features/JAL-1541_BioJsMSAViewer-export...
tree
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commitdiff
2014-11-14
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2014-11-14
Charles Ofoegbu
House keeping
tree
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commitdiff
2014-11-14
gmungoc
JAL-1528 Chimera Help doc + fixes to setting colours
tree
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commitdiff
2014-11-13
Jim Procter
Merge branch 'features/JAL-1469_svg-output-for-figure...
tree
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commitdiff
2014-11-13
Jim Procter
Merge branch 'features/JAL-1469_svg-output-for-figure...
tree
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commitdiff
2014-11-13
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2014-11-13
gmungoc
merge
tree
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commitdiff
2014-11-13
gmungoc
JAL-1528 new Preference CHIMERA_PATH (Preferences ...
tree
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commitdiff
2014-11-13
gmungoc
JAL-1528 Chimera tidy errors, focus after align, close...
tree
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commitdiff
2014-11-12
Charles Ofoegbu
house-keeping
tree
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commitdiff
2014-11-12
Charles Ofoegbu
Added support for SVG Export
tree
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commitdiff
2014-11-12
gmungoc
JAL-1528 bug fixes and adjustments to Chimera interface
tree
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commitdiff
2014-11-12
Jim Procter
Merge branch 'develop' into features/JAL-1541_BioJsMSAV...
tree
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commitdiff
2014-11-12
Jim Procter
Merge branch 'features/typed_annotations_calcId' into...
tree
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commitdiff
2014-11-12
Jim Procter
JAL-974 fix class contamination for jalviewLite build
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commitdiff
2014-11-12
gmungoc
Merge branch 'develop' of https://source.jalview.org...
tree
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commitdiff
2014-11-12
Jim Procter
Merge branch 'features/typed_annotations_calcId' into...
tree
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commitdiff
2014-11-12
Jim Procter
javadoc
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commitdiff
2014-11-12
Jim Procter
JAL-674 use the getMapping/transfer to transfer annotat...
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commitdiff
2014-11-12
Jim Procter
JAL-674 patch broken getMapping function
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commitdiff
2014-11-12
Jim Procter
JAL-674 note about broken .transfer method (expect...
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commitdiff
2014-11-12
Jim Procter
JAL-674 javadoc
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commitdiff
2014-11-12
Charles Ofoegbu
Excluded HtmlFile.java dependencies from AppletFomatAdapter
tree
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commitdiff
2014-11-12
Charles Ofoegbu
Modified biojs exporter/importer to preserve SequenceFe...
tree
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commitdiff
2014-11-11
gmungoc
JAL-1527 opening a project saved with JMol should use...
tree
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commitdiff
2014-11-07
Charles Ofoegbu
Modified BioJsHTMLOutput.java to clean up and close...
tree
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commitdiff
2014-11-07
Charles Ofoegbu
Modified BioJsHTMLOutput.java to use class loader while...
tree
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commitdiff
2014-11-06
Charles Ofoegbu
Changes from JAL-1541 patch
tree
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commitdiff
2014-11-06
Charles Ofoegbu
Updated BioJs Html to be capable of launching jalivew
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commitdiff
2014-11-06
Jim Procter
Merge branch 'features/JAL-1152annotationSorting' into...
tree
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commitdiff
2014-11-06
Jim Procter
Merge branch 'features/JAL-1541_BioJsMSAViewer-export...
tree
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commitdiff
2014-11-06
gmungoc
JAL-1152 use a proper RadioButton not a faked one
tree
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commitdiff
2014-11-05
gmungoc
JAL-674 Prefences tweaks incl help documentation for...
tree
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commitdiff
2014-11-05
gmungoc
JAL-1152 new Structure tab on Preferences for SS deriva...
tree
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commitdiff
2014-11-04
gmungoc
JAL-1152 annotation sort algorithm optimisation
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commitdiff
2014-11-04
Jim Procter
JAL-1213 normalise sequence extracted from Jmol in...
tree
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commitdiff
2014-11-03
gmungoc
Merge branch 'features/JAL-1152annotationSorting' of...
tree
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commitdiff
2014-11-03
gmungoc
JAL-1152 annotation sorting preferences and help docume...
tree
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commitdiff
2014-11-03
Jim Procter
Merge branch 'develop' into features/JAL-1152annotation...
tree
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commitdiff
2014-11-03
Jim Procter
Merge branch 'bug/JAL-1250_redundance-removal' into...
tree
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commitdiff
2014-11-03
Jim Procter
Merge branch 'develop' into features/JAL-1152annotation...
tree
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commitdiff
2014-11-03
Jim Procter
JAL-795 JAL-674 tweaked logic to avoid black annotation...
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commitdiff
2014-11-03
Jim Procter
fix for JAL-1579 create threshold object for annotation...
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commitdiff
2014-11-03
Jim Procter
JAL-1578 JAL-674 store/restore alignment annotation...
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commitdiff
2014-11-03
Jim Procter
JAL-1578 formatting and imports
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commitdiff
2014-11-03
Jim Procter
JAL-1551 formatting
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commitdiff
2014-11-03
Jim Procter
JAL-674 JAL-961 JAL-1578 accessors and copy constructor...
tree
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commitdiff
2014-11-03
Jim Procter
javadoc
tree
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commitdiff
2014-10-31
gmungoc
JAL-1152 bug fix for 'no sort' case + tests for autocal...
tree
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commitdiff
2014-10-31
gmungoc
JAL-1152 menu tweaks plus new option to put Autocalc...
tree
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commitdiff
2014-10-31
Jim Procter
JAL-674 JAL-961 pass row reference to handler to check...
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commitdiff
2014-10-31
Jim Procter
JAL-674 JAL-961 properties to stash additional informat...
tree
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commitdiff
2014-10-31
Charles Ofoegbu
JAL-1541 upadated BioJs emmitter to store alignment...
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commitdiff
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