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[jalview.git] / src /
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 Charles OfoegbuHouse keeping 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 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
2014-11-07 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
2014-10-30 Jim ProcterJAL-674 use PDB ID<>File registry to look up correct... tree | commitdiff
2014-10-30 Jim ProcterJAL-674 return original and replacement sequences and... tree | commitdiff
2014-10-30 Jim ProcterJAL-674 helpful javadoc for remap method tree | commitdiff
2014-10-30 Jim ProcterJAL-674 flag and proxy method to distinguish setMapping... tree | commitdiff
2014-10-30 Jim ProcterJAL-674 map on StructureSelectionManager to record... tree | commitdiff
2014-10-30 Jim Procterpatch for JAL-795 - use base secondary structure colour... tree | commitdiff
2014-10-30 Jim ProcterJAL-1551 format and tidy tree | commitdiff
2014-10-30 gmungocJAL-1152 prototype of new Annotations menu with sort... tree | commitdiff
2014-10-30 Charles OfoegbuJAL-353 updated patch for undo successive remove redund... tree | commitdiff
2014-10-30 Charles OfoegbuJAL-1541 BioJs MSA Viewer export option implementation tree | commitdiff
2014-10-29 Charles OfoegbuJAL-353 updated patch for undo successive remove redund... tree | commitdiff
2014-10-29 Jim ProcterJAL-1264 JAL-674 method to copy annotation on structure... tree | commitdiff
2014-10-29 Jim ProcterJAL-674 JAL-1264 remap method to allow annotation posit... tree | commitdiff
2014-10-28 gmungocMerge branch 'develop' of https://source.jalview.org... tree | commitdiff
2014-10-28 gmungocJAL-1264 refactor to add menu options to _both_ sequenc... tree | commitdiff
2014-10-28 Charles Ofoegbu2_8_2_Branch merge tree | commitdiff
2014-10-28 Charles OfoegbuJAL-353 undo for successive removal of redundant sequen... tree | commitdiff
2014-10-28 Charles OfoegbuJAL-1250 Redundancy removal bug fix for Applet version tree | commitdiff
2014-10-27 Jim ProcterMerge branch 'Release_2_8_2_Branch' into merge_r282_dev tree | commitdiff
2014-10-27 Charles OfoegbuUpdated RedundancyPanel.java to referesh the tree view... tree | commitdiff
2014-10-27 Charles OfoegbuPatch for redundancy removal tree | commitdiff
2014-10-23 Jim ProcterMerge branch 'hotfix/JAL-1521' into Release_2_8_2_Branch tree | commitdiff
2014-10-23 unknownJAL-1521 updated xerces to 2.11 along with xml-apis tree | commitdiff
2014-10-23 Jim Procterpatch fixes JAL-1558 tree | commitdiff
2014-10-23 gmungocJAL-1264 further refactoring and tests tree | commitdiff
2014-10-21 Jim ProcterJAL-674 check for null vector before ... tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 reinstate missing import tree | commitdiff
2014-10-21 Jim ProcterJAL-674 initial implementation - only need to extract... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 JAL-1551 imports dropped during merge tree | commitdiff
2014-10-21 Jim ProcterJAL-674 remove any spurious PDBEntrys generated by... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 methods and test for PDB derived annotation... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 store ID in MCview.PDBfile calcId string, not... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 don't create multiple secondary structure lines... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 test for presence of annotation derived from... tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 formatting tree | commitdiff
2014-10-21 Jim ProcterJAL-674 patch for duplicate row bug tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 formatting tree | commitdiff
2014-10-21 Jim ProcterJAL-674 patch to ensure existing annotation is properly... tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 source formatting tree | commitdiff
2014-10-21 Jim ProcterJAL-674 JAL-207 getTers for aligned sequences in datase... tree | commitdiff
2014-10-21 Jim ProcterJAL-674 refactor method to match and transfer annotatio... tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 formatting tree | commitdiff
2014-10-21 Jim ProcterMerge branch 'features/JAL-1264_showHideAnnotations... tree | commitdiff
2014-10-21 Jim ProcterJAL-1551 crlf changes tree | commitdiff
2014-10-16 Jim ProcterMerge branch 'feature/JAL-674_dssp' into features/JAL... features/JAL-1264_showHideAnnotations tree | commitdiff
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto tree | commitdiff
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto tree | commitdiff
2014-10-15 Jim ProcterJAL-674 always try to extract secondary structure when... tree | commitdiff
2014-10-15 Jim ProcterJAL-674 support preservation of any annotation created... tree | commitdiff
2014-10-15 Jim ProcterJAL-674 make transferAnnotation method static tree | commitdiff
2014-10-15 Jim ProcterJAL-348 JAL-674 JAL-1564 TODO and implementation error... tree | commitdiff
2014-10-15 Jim ProcterJAL-674 patch logic to test whether old and new sequenc... tree | commitdiff
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