jalview.git
2014-11-03 Jim ProcterJAL-795 JAL-674 tweaked logic to avoid black annotation...
2014-11-03 Jim Procterfix for JAL-1579 create threshold object for annotation...
2014-11-03 Jim ProcterJAL-1578 test property accessors/copy constructor
2014-11-03 Jim ProcterJAL-1578 JAL-674 store/restore alignment annotation...
2014-11-03 Jim ProcterJAL-1578 formatting and imports
2014-11-03 Jim ProcterJAL-674 peptide structure input so test is not dependen...
2014-11-03 Jim ProcterJAL-1551 formatting
2014-11-03 Jim ProcterJAL-674 JAL-961 JAL-1578 accessors and copy constructor...
2014-11-03 Jim Procterjavadoc
2014-10-31 Jim ProcterJAL-674 JAL-961 pass row reference to handler to check...
2014-10-31 Jim ProcterJAL-674 JAL-961 properties to stash additional informat...
2014-10-30 Jim ProcterMerge branch 'develop' into features/ssFromPDBEntry
2014-10-30 Jim ProcterJAL-674 hang on to sequences created by secondary parsi...
2014-10-30 Jim ProcterJAL-674 count number of annotation transferred in test
2014-10-30 Jim ProcterJAL-674 propagate annotation onto mapped sequence and...
2014-10-30 Jim ProcterJAL-674 register PDB IDs when ever they are resolved...
2014-10-30 Jim ProcterJAL-674 use PDB ID<>File registry to look up correct...
2014-10-30 Jim ProcterJAL-674 return original and replacement sequences and...
2014-10-30 Jim ProcterJAL-674 helpful javadoc for remap method
2014-10-30 Jim ProcterJAL-674 flag and proxy method to distinguish setMapping...
2014-10-30 Jim ProcterJAL-674 map on StructureSelectionManager to record...
2014-10-30 Jim Procterpatch for JAL-795 - use base secondary structure colour...
2014-10-30 Jim ProcterJAL-674 patch test to verify presence of annotation...
2014-10-30 Jim ProcterJAL-1551 format and tidy
2014-10-29 Jim ProcterJAL-1264 JAL-674 test to exercise the AlignmentAnnotati...
2014-10-29 Jim ProcterJAL-1264 JAL-674 method to copy annotation on structure...
2014-10-29 Jim ProcterJAL-674 JAL-1264 remap method to allow annotation posit...
2014-10-28 gmungocMerge branch 'develop' of https://source.jalview.org...
2014-10-28 gmungocJAL-1264 refactor to add menu options to _both_ sequenc...
2014-10-27 Jim ProcterMerge branch 'Release_2_8_2_Branch' into merge_r282_dev
2014-10-23 Jim ProcterMerge branch 'hotfix/JAL-1521' into Release_2_8_2_Branch
2014-10-23 Jim ProcterMerge branch 'hotfix/JAL-1521' into develop
2014-10-23 unknownJAL-1521 updated xerces to 2.11 along with xml-apis
2014-10-23 Jim ProcterJAL-1521 patch is to remove xerces from classpath....
2014-10-23 Jim ProcterJAL-1521 test to check registry is returning sources
2014-10-23 Jim Procterpatch fixes JAL-1558
2014-10-23 Jim ProcterJAL-1503 tag 2.8.1b1 hotfix - last in 2.8.1 line
2014-10-23 gmungocJAL-1264 new unit tests
2014-10-23 gmungocJAL-1264 further refactoring and tests
2014-10-22 gmungocJAL-1304 repositioned tab to correct example
2014-10-21 Jim ProcterMerge branch 'forpush/JAL-674_dssp' into develop
2014-10-21 Jim ProcterJAL-674 check for null vector before ...
2014-10-21 Jim ProcterMerge branch 'patch_sjf4j_typo' into develop
2014-10-21 Jim ProcterJAL-1216 update varna dependency string in jalviewLite...
2014-10-21 Jim ProcterMerge branch 'patch_sjf4j_typo' into develop
2014-10-21 Jim ProcterJWS-59 JAL-1216 patch broken InstallAnywhere build
2014-10-21 Jim ProcterMerge branch 'forpush/JAL-674_dssp' into develop
2014-10-21 Jim ProcterJAL-1551 reinstate missing import
2014-10-21 Jim ProcterJAL-674 initial implementation - only need to extract...
2014-10-21 Jim ProcterJAL-1551 crlf
2014-10-21 Jim ProcterJAL-674 JAL-1551 imports dropped during merge
2014-10-21 Jim ProcterJAL-1216 update to VARNA 3.91
2014-10-21 Jim ProcterJAL-674 remove any spurious PDBEntrys generated by...
2014-10-21 Jim ProcterJAL-674 methods and test for PDB derived annotation...
2014-10-21 Jim ProcterJAL-674 store ID in MCview.PDBfile calcId string, not...
2014-10-21 Jim ProcterJAL-674 don't create multiple secondary structure lines...
2014-10-21 Jim ProcterJAL-674 test for the test for presence of annotation...
2014-10-21 Jim ProcterJAL-674 test for presence of annotation derived from...
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterJAL-674 patch for duplicate row bug
2014-10-21 Jim ProcterJAL-674 test for duplicate alignment annotation rows...
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterJAL-674 patch to ensure existing annotation is properly...
2014-10-21 Jim ProcterJAL-674 test to ensure sequence and annotation on seque...
2014-10-21 Jim ProcterJAL-1551 source formatting
2014-10-21 Jim ProcterJAL-674 JAL-207 getTers for aligned sequences in datase...
2014-10-21 Jim ProcterJAL-674 refactor method to match and transfer annotatio...
2014-10-21 Jim ProcterJAL-1551 formatting
2014-10-21 Jim ProcterMerge branch 'features/JAL-1264_showHideAnnotations...
2014-10-21 Jim ProcterJAL-1551 crlf changes
2014-10-16 Jim ProcterMerge branch 'feature/JAL-674_dssp' into features/JAL... features/JAL-1264_showHideAnnotations
2014-10-15 Jim ProcterMerge branch 'jims_crlf_hell_JAL-1551' of https://sourc...
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto
2014-10-15 Jim ProcterJAL-1551 crlf changes due to checkout with text=auto
2014-10-15 Jim ProcterJAL-674 always try to extract secondary structure when...
2014-10-15 Jim ProcterJAL-674 support preservation of any annotation created...
2014-10-15 Jim ProcterJAL-674 make transferAnnotation method static
2014-10-15 Jim ProcterJAL-348 JAL-674 JAL-1564 TODO and implementation error...
2014-10-15 Jim ProcterJAL-674 patch logic to test whether old and new sequenc...
2014-10-15 Jim ProcterJAL-674 JAL-1305 JAL-348 new liftOver method and test...
2014-10-14 gmungocJAL-1551 CRLF handling
2014-10-13 gmungocJAL-1264 unneeded setup removed
2014-10-13 gmungocJAL-1264 unit test corrected
2014-10-12 gmungocJAL-1544 SEQENCE -> SEQUENCE
2014-10-12 gmungocJAL-1264 help updates for show/hide annotations on
2014-10-10 Jim ProcterJAL-674 employ new signature in Annotate3D service...
2014-10-10 Jim ProcterJAL-674 disable secondary structure annotation when...
2014-10-10 Jim ProcterJAL-674 typo
2014-10-10 Jim ProcterJAL-674 new constructors to pass flags about annotating...
2014-10-10 Jim ProcterJAL-674 parser flag to control secondary structure...
2014-10-10 Jim ProcterJAL-674 change jalview.io.AlignFile to allow parsing...
2014-10-10 gmungocJAL-1551 project-specific settings
2014-10-10 gmungocJAL-1551 proposed project settings for code cleanup...
2014-10-10 gmungocJAL-1264 unit tests
2014-10-10 gmungocSuppressed test that needs user interaction to allow...
2014-10-10 gmungocJAL-1551 CRLF handling
2014-10-10 gmungocJAL-1264 show/hide annotations, plus merged changes
2014-10-10 gmungocJAL-1481 wrap tooltip in html
2014-10-10 gmungocJAL-1264 added getAlignmentAnnotations(calcId, label)
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