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JAL-674 fix test properties path and add properties file
[jalview.git]
/
src
/
jalview
/
2014-11-27
Jim Procter
JAL-674 JAL-966 new method to retrieve all views
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commitdiff
2014-11-27
Jim Procter
organise imports
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commitdiff
2014-11-27
Jim Procter
JAL-966 promote getName to an api method
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commitdiff
2014-11-26
Charles Ofoegbu
Merge branch 'bug/JAL-207_pairwise-alignment-context...
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commitdiff
2014-11-26
Charles Ofoegbu
JAL-207 pairwise alignment sequence contexts propergati...
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commitdiff
2014-11-26
Charles Ofoegbu
Merge branch 'bug/JAL-998_wrap-sequence-tooltip' into...
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commitdiff
2014-11-26
Charles Ofoegbu
JAL-998 fixed empty tooltip bug when only one sequence...
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commitdiff
2014-11-26
Jim Procter
JAL-674 make RNAML-extracted secondary structure lines...
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commitdiff
2014-11-26
Jim Procter
JAL-1578 fix logic for showing score when no descriptio...
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commitdiff
2014-11-26
Jim Procter
JAL-674 JAL-1578 commented code for displaying annotati...
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commitdiff
2014-11-26
Jim Procter
JAL-674 friendly name for PDB file included in secondar...
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commitdiff
2014-11-25
Jim Procter
fix for JAL-689 ensure fastpainting flag set only when...
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commitdiff
2014-11-25
Jim Procter
formatting
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commitdiff
2014-11-25
Jim Procter
patch for JAL-1599 - annotation row constructed by...
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commitdiff
2014-11-25
Charles Ofoegbu
merge commit
features/JAL-1469_svg-output-for-figure-export
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commitdiff
2014-11-25
Charles Ofoegbu
JAL-1469 Added SVGOptions.java for lineart/text renderi...
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commitdiff
2014-11-25
gmungoc
JFAL-1594 fix Undo bug; enum EditCommand.Action; basic...
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commitdiff
2014-11-24
Jim Procter
Merge branch 'JAL-1569_wuss_vienna_broke' into Release_...
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commitdiff
2014-11-24
Jim Procter
JAL-1593 refactor rna helix colours to static singleton...
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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 ...
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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 Release_...
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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...
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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
gmungoc
JAL-1528 found and readded Colour by Chain ('rainbow...
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commitdiff
2014-11-21
gmungoc
Merge branch 'Release_2_8_2_Branch' of https://source...
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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
2014-11-19
gmungoc
JAL-1342 new command-line parameter -jabaws <URL>
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commitdiff
2014-11-19
Charles Ofoegbu
JAL-207 pairwise alignment context patch
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commitdiff
2014-11-19
Charles Ofoegbu
JAL-1522 included installation details in log output
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commitdiff
2014-11-18
Charles Ofoegbu
Merge branch 'bug/JAL-998_wrap-sequence-tooltip' into...
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commitdiff
2014-11-18
Charles Ofoegbu
JAL-998 tooltip wrapping
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commitdiff
2014-11-18
gmungoc
JAL-1349 rebuild Web Service menu after add/delete...
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commitdiff
2014-11-18
gmungoc
JAL-1582 removing finalize() as may have unexpected...
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commitdiff
2014-11-18
gmungoc
JAL-1582 quicker tooltip on service presets (and code...
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commitdiff
2014-11-18
gmungoc
JAL-1349 refresh menu presets after 'create' new
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commitdiff
2014-11-18
gmungoc
JAL-1580 Chimera path tooltip, removed focusListener
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commitdiff
2014-11-18
gmungoc
Merge branch 'Release_2_8_2_Branch' of https://source...
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commitdiff
2014-11-18
Jim Procter
Merge branch 'JAL-1587_promotedisorder' into Release_2_...
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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
Charles Ofoegbu
Undo changes to JabaWsServerQuery.java
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commitdiff
2014-11-17
Charles Ofoegbu
Undo changes to JabaWsServerQuery.java
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commitdiff
2014-11-17
gmungoc
JAL-1581 Tooltip slimmed down, Help button added on...
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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
Charles Ofoegbu
JAL-1043 patch to show warning dialog when webservice...
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commitdiff
2014-11-17
gmungoc
JAL-1293 hide/show sequence annotations with hide/revea...
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commitdiff
2014-11-17
gmungoc
JAL-1586 chimera file chooser added, validate on OK...
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commitdiff
2014-11-17
Charles Ofoegbu
Merge branch 'bug/JAL-1570_unable-to-add-JABAWS-Server...
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commitdiff
2014-11-17
Charles Ofoegbu
updated documentation
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commitdiff
2014-11-17
Jim Procter
Merge branch 'Release_2_8_2_Branch' into mrg_dev_282
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commitdiff
2014-11-17
Charles Ofoegbu
comand line support for svg generation
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commitdiff
2014-11-17
gmungoc
JAL-1580 size parameters dialog to height of Desktop
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commitdiff
2014-11-17
Charles Ofoegbu
JAL-1570 patch to enable adding a webservice which...
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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 ...
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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...
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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
2014-11-12
Charles Ofoegbu
house-keeping
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commitdiff
2014-11-12
Charles Ofoegbu
Added support for SVG Export
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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
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
2014-11-11
gmungoc
JAL-1527 opening a project saved with JMol should use...
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commitdiff
2014-11-06
Jim Procter
Merge branch 'features/JAL-1152annotationSorting' into...
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commitdiff
2014-11-06
gmungoc
JAL-1152 use a proper RadioButton not a faked one
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commitdiff
2014-11-05
gmungoc
JAL-674 Prefences tweaks incl help documentation for...
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commitdiff
2014-11-05
gmungoc
JAL-1152 new Structure tab on Preferences for SS deriva...
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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...
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commitdiff
2014-11-03
gmungoc
Merge branch 'features/JAL-1152annotationSorting' of...
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commitdiff
2014-11-03
gmungoc
JAL-1152 annotation sorting preferences and help docume...
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commitdiff
2014-11-03
Jim Procter
Merge branch 'develop' into features/JAL-1152annotation...
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commitdiff
2014-11-03
Jim Procter
Merge branch 'bug/JAL-1250_redundance-removal' into...
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commitdiff
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