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Merge branch 'JAL-1569_wuss_vienna_broke' into develop
[jalview.git] / src /
2014-11-23 Jim ProcterMerge branch 'JAL-1569_wuss_vienna_broke' into develop tree | commitdiff
2014-11-23 Jim Procteremploy test and secondary structure character for deter... tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 formatting tree | commitdiff
2014-11-23 Jim ProcterJAL-1593 allow per-sequence shading of RNA helix (store... tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 test for open/close RNA parenthesis character tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 formatting tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 consistent handling of sequence and alignment... tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 formatting tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 preserve input ordering for stockholm files... tree | commitdiff
2014-11-23 Jim ProcterJAL-1569 remove stdout on parsing RNA tree | commitdiff
2014-11-23 Jim ProcterJAL-1152 avoid NPE on null alignment annotation vector tree | commitdiff
2014-11-21 Jim ProcterJAL-674 add RNA sequence associated annotation to align... tree | commitdiff
2014-11-21 Jim ProcterJAL-1569 formatting tree | commitdiff
2014-11-21 Jim ProcterJAL-1140 sensible name for seuqences in RNAML files... tree | commitdiff
2014-11-21 Jim ProcterJAL-1489 change initial value to distinguish non-rna... tree | commitdiff
2014-11-21 Jim ProcterJAL-1592 JAL-1489 avoid invalid RNA structure and disti... tree | commitdiff
2014-11-20 Jim ProcterJAL-1569 rna pair code in secondary structure character... tree | commitdiff
2014-11-20 Jim ProcterJAL-674 JAL-1569 mark RNA helix number in the value... tree | commitdiff
2014-11-20 Jim ProcterJAL-1569 remove log output during RNA secondary structu... tree | commitdiff
2014-11-18 Jim ProcterMerge branch 'JAL-1587_promotedisorder' into develop tree | commitdiff
2014-11-18 Jim ProcterJAL-674 make temperature factor, local secondary struct... tree | commitdiff
2014-11-17 Jim ProcterJAL-1587 distinct calc IDs for JPredMSA and Jpred singl... tree | commitdiff
2014-11-17 Jim ProcterJAL-1587 propagate results of JABA sequence based predi... tree | commitdiff
2014-11-17 Jim Procterimports and formatting tree | commitdiff
2014-11-17 Jim ProcterJAL-1587 propagate JPred annotation from legacy jpred... tree | commitdiff
2014-11-17 Jim Procterformatting tree | commitdiff
2014-11-17 Jim ProcterJAL-1587 JAL-407 instrument setDataset to add dataset... tree | commitdiff
2014-11-17 Jim ProcterMerge branch 'r282_portforward' into develop tree | commitdiff
2014-11-17 Jim ProcterMerge branch 'Release_2_8_2_Branch' into mrg_dev_282 tree | commitdiff
2014-11-17 Charles Ofoegbucomand line support for svg generation tree | commitdiff
2014-11-17 gmungocJAL-1580 size parameters dialog to height of Desktop tree | commitdiff
2014-11-17 Charles OfoegbuJAL-1570 patch to enable adding a webservice which... tree | commitdiff
2014-11-17 gmungocJAL-1528 Chimera Help doc + fixes to setting colours tree | commitdiff
2014-11-17 gmungocJAL-1528 new Preference CHIMERA_PATH (Preferences ... tree | commitdiff
2014-11-17 gmungocJAL-1528 Chimera tidy errors, focus after align, close... tree | commitdiff
2014-11-17 gmungocJAL-1528 bug fixes and adjustments to Chimera interface tree | commitdiff
2014-11-17 Jim ProcterMerge commit '1d9e1c80fb6c0e32313a976ae0065fd32639f2bc... tree | commitdiff
2014-11-17 Charles Ofoegbucomand line support for svg generation tree | commitdiff
2014-11-14 Charles OfoegbuMerge branch 'feature/JAL-1541_BioJsMSAViewer-export... tree | commitdiff
2014-11-14 Charles Ofoegbuhouse keeping features/JAL-1541_BioJsMSAViewer-export-option tree | commitdiff
2014-11-14 Charles OfoegbuMerge branch 'features/JAL-1541_BioJsMSAViewer-export... tree | commitdiff
2014-11-14 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2014-11-14 Charles OfoegbuHouse keeping tree | commitdiff
2014-11-14 gmungocJAL-1528 Chimera Help doc + fixes to setting colours tree | commitdiff
2014-11-13 Jim ProcterMerge branch 'features/JAL-1469_svg-output-for-figure... tree | commitdiff
2014-11-13 Jim ProcterMerge branch 'features/JAL-1469_svg-output-for-figure... tree | commitdiff
2014-11-13 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2014-11-13 gmungocmerge tree | commitdiff
2014-11-13 gmungocJAL-1528 new Preference CHIMERA_PATH (Preferences ... tree | commitdiff
2014-11-13 gmungocJAL-1528 Chimera tidy errors, focus after align, close... tree | commitdiff
2014-11-12 Charles Ofoegbuhouse-keeping tree | commitdiff
2014-11-12 Charles OfoegbuAdded support for SVG Export tree | commitdiff
2014-11-12 gmungocJAL-1528 bug fixes and adjustments to Chimera interface tree | commitdiff
2014-11-12 Jim ProcterMerge branch 'develop' into features/JAL-1541_BioJsMSAV... tree | commitdiff
2014-11-12 Jim ProcterMerge branch 'features/typed_annotations_calcId' into... tree | commitdiff
2014-11-12 Jim ProcterJAL-974 fix class contamination for jalviewLite build tree | commitdiff
2014-11-12 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2014-11-12 Jim ProcterMerge branch 'features/typed_annotations_calcId' into... tree | commitdiff
2014-11-12 Jim Procterjavadoc tree | commitdiff
2014-11-12 Jim ProcterJAL-674 use the getMapping/transfer to transfer annotat... tree | commitdiff
2014-11-12 Jim ProcterJAL-674 patch broken getMapping function tree | commitdiff
2014-11-12 Jim ProcterJAL-674 switch from .transfer to .liftOver for transfer... tree | commitdiff
2014-11-12 Jim ProcterJAL-674 note about broken .transfer method (expect... tree | commitdiff
2014-11-12 Jim ProcterJAL-674 javadoc tree | commitdiff
2014-11-12 Charles OfoegbuExcluded HtmlFile.java dependencies from AppletFomatAdapter tree | commitdiff
2014-11-12 Charles OfoegbuModified biojs exporter/importer to preserve SequenceFe... tree | commitdiff
2014-11-11 gmungocJAL-1527 opening a project saved with JMol should use... tree | commitdiff
2014-11-07 Charles OfoegbuModified BioJsHTMLOutput.java to clean up and close... tree | commitdiff
2014-11-07 Charles OfoegbuModified BioJsHTMLOutput.java to use class loader while... tree | commitdiff
2014-11-06 Charles OfoegbuChanges from JAL-1541 patch tree | commitdiff
2014-11-06 Charles OfoegbuUpdated BioJs Html to be capable of launching jalivew tree | commitdiff
2014-11-06 Jim ProcterMerge branch 'features/JAL-1152annotationSorting' into... tree | commitdiff
2014-11-06 Jim ProcterMerge branch 'features/JAL-1541_BioJsMSAViewer-export... tree | commitdiff
2014-11-06 gmungocJAL-1152 use a proper RadioButton not a faked one tree | commitdiff
2014-11-05 gmungocJAL-674 Prefences tweaks incl help documentation for... tree | commitdiff
2014-11-05 gmungocJAL-1152 new Structure tab on Preferences for SS deriva... tree | commitdiff
2014-11-04 gmungocJAL-1152 annotation sort algorithm optimisation tree | commitdiff
2014-11-04 Jim ProcterJAL-1213 normalise sequence extracted from Jmol in... tree | commitdiff
2014-11-03 gmungocMerge branch 'features/JAL-1152annotationSorting' of... tree | commitdiff
2014-11-03 gmungocJAL-1152 annotation sorting preferences and help docume... tree | commitdiff
2014-11-03 Jim ProcterMerge branch 'develop' into features/JAL-1152annotation... tree | commitdiff
2014-11-03 Jim ProcterMerge branch 'bug/JAL-1250_redundance-removal' into... tree | commitdiff
2014-11-03 Jim ProcterMerge branch 'develop' into features/JAL-1152annotation... tree | commitdiff
2014-11-03 Jim ProcterJAL-795 JAL-674 tweaked logic to avoid black annotation... tree | commitdiff
2014-11-03 Jim Procterfix for JAL-1579 create threshold object for annotation... tree | commitdiff
2014-11-03 Jim ProcterJAL-1578 JAL-674 store/restore alignment annotation... tree | commitdiff
2014-11-03 Jim ProcterJAL-1578 formatting and imports tree | commitdiff
2014-11-03 Jim ProcterJAL-1551 formatting tree | commitdiff
2014-11-03 Jim ProcterJAL-674 JAL-961 JAL-1578 accessors and copy constructor... tree | commitdiff
2014-11-03 Jim Procterjavadoc tree | commitdiff
2014-10-31 gmungocJAL-1152 bug fix for 'no sort' case + tests for autocal... tree | commitdiff
2014-10-31 gmungocJAL-1152 menu tweaks plus new option to put Autocalc... tree | commitdiff
2014-10-31 Jim ProcterJAL-674 JAL-961 pass row reference to handler to check... tree | commitdiff
2014-10-31 Jim ProcterJAL-674 JAL-961 properties to stash additional informat... tree | commitdiff
2014-10-31 Charles OfoegbuJAL-1541 upadated BioJs emmitter to store alignment... tree | commitdiff
2014-10-30 Jim ProcterMerge branch 'develop' into features/ssFromPDBEntry tree | commitdiff
2014-10-30 Jim ProcterJAL-674 hang on to sequences created by secondary parsi... tree | commitdiff
2014-10-30 gmungocJAL-1152 with sticky annotation sort order that updates... tree | commitdiff
2014-10-30 Jim ProcterJAL-674 propagate annotation onto mapped sequence and... tree | commitdiff
2014-10-30 Jim ProcterJAL-674 register PDB IDs when ever they are resolved... tree | commitdiff
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