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FileParse object can be re-used to read different files concatenated together
[jalview.git] / src / jalview /
2007-10-02 jprocterconvenience constructor for duplicating an annotation... tree | commitdiff
2007-10-02 jprocterjavadoc and operator for editing AlignmentAnnotation... tree | commitdiff
2007-10-02 jprocterjavadoc tree | commitdiff
2007-09-29 jprocteralways update PDBEntry list if DBRefEntries might have... tree | commitdiff
2007-09-29 jprocterupdatePDBEntry method to add any PDBEntry from the... tree | commitdiff
2007-09-29 jprocteruse pdb refsource string tree | commitdiff
2007-09-29 jprocterjavadoc tree | commitdiff
2007-09-29 jprocterfriendlier sequence names for protein products tree | commitdiff
2007-09-28 jprocterbetter support for TreeNode binding tree | commitdiff
2007-09-28 jprocterjavadoc for jalview_properties tags tree | commitdiff
2007-09-27 jproctermodifiable lock check tree | commitdiff
2007-09-25 jprocterascii file tree | commitdiff
2007-09-25 jprocterbeginning of vamsas/local object synchronization patter... tree | commitdiff
2007-09-25 jprocteradded store of undo/redo hash for each alignment so... tree | commitdiff
2007-09-25 jprocterprimitive methods for getting current undo/redo state... tree | commitdiff
2007-09-18 jprocterfix class-cast exception and added beginnings of DBRef... tree | commitdiff
2007-09-14 jprocteradded support for loading a vamsas document into a... tree | commitdiff
2007-09-14 jprocterbetter reproduction of compact newick files (removal... tree | commitdiff
2007-09-10 jprocterchoose a particular vamsas session, load, or create... tree | commitdiff
2007-09-10 jprocterensure dbrefs are added to dataset sequence. tree | commitdiff
2007-09-07 jprocterformatting and ensure that dataset is actually searched... tree | commitdiff
2007-09-07 jprocteradded action for saving the current session as a vamsas... tree | commitdiff
2007-09-07 jprocterMaps are usually added to DbRefs which are added to... tree | commitdiff
2007-09-07 jprocteradded a more general DBRef search interface tree | commitdiff
2007-09-06 jprocterbootstrap regex 'fixed' and ugly hack to try and get... tree | commitdiff
2007-09-06 jprocterargs for emblfile parser main method tree | commitdiff
2007-09-06 jprocterfixes bootstrap bug noted by Chunlong Chen in email... tree | commitdiff
2007-09-04 jprocterbasic fix for pfelkers problem with ':' in the last... tree | commitdiff
2007-09-04 jproctergff parsing when no start or end position is defined. tree | commitdiff
2007-08-31 jprocteradded CSV export of annotation rows to application. tree | commitdiff
2007-08-30 jprocter*really* make sure database references are stored and... tree | commitdiff
2007-08-30 jprocterensure codon mappings and database references are merge... tree | commitdiff
2007-08-30 jproctersequenceMappings go on boh datasets involved in a mappi... tree | commitdiff
2007-08-30 jprocterrefactored and ensured alCodonMappings are propagated... tree | commitdiff
2007-08-30 jprocterstore dataset references, sequence dataset ids, and... tree | commitdiff
2007-08-30 jprocterimproved vamsas treenode node binding support tree | commitdiff
2007-08-30 jproctermoved dataset sequence creation onto sequence method tree | commitdiff
2007-08-30 jproctercreate dataset sequence method tree | commitdiff
2007-08-30 jprocterremoved autogenerated todo tree | commitdiff
2007-08-30 jprocteradded aligned codon frames, and dataset reference ids... tree | commitdiff
2007-08-24 jprocterdataset alignments have a reference count which must... tree | commitdiff
2007-08-24 jprocterremove null pointer exception when embl file is not... tree | commitdiff
2007-08-24 jproctertodo comments tree | commitdiff
2007-08-23 jprocterproper vamsas style binding of alignment sequence objec... tree | commitdiff
2007-08-22 jprocterpopup for non-fatal tree parsing error tree | commitdiff
2007-08-22 jprocterquick fix for exceptions due to invalid embl refs tree | commitdiff
2007-08-22 jprocterfix serious repetitive exceptions if user closes colour... tree | commitdiff
2007-08-22 jproctercatch occasional -ve imgWidth exception tree | commitdiff
2007-08-22 jprocteradded failsafe fix for cases where null sequence names... tree | commitdiff
2007-08-22 jprocterintroduce beginning of bug fix for parsing atv style... tree | commitdiff
2007-08-22 jprocteradded facility for sending non-fatal warnings back... tree | commitdiff
2007-08-13 jprocterfixed typo in new 2_3 startup file default value tree | commitdiff
2007-08-08 jproctergeneralise name of prediction method tree | commitdiff
2007-08-08 jprocterhistidine should be midblue (noticed by Peter Knight... tree | commitdiff
2007-08-06 jproctercomment concerning null exceptions generated when annot... tree | commitdiff
2007-08-06 jprocternull pointer exception blocked redraw of annotation... tree | commitdiff
2007-08-02 jprocterjavadoc and bugfix for 'save' when jalview is default... tree | commitdiff
2007-08-01 jprocteradded the '-tree' parameter to open a tree from the... tree | commitdiff
2007-08-01 jprocterjavadoc tree | commitdiff
2007-08-01 jprocterensure current dataset reference is passed to the cross... tree | commitdiff
2007-08-01 jprocteradded tree as an applet to application servlet parameter tree | commitdiff
2007-08-01 jprocternull pointer exception bug fix tree | commitdiff
2007-07-31 jprocterdebugging cross references and duplicate sequence db... tree | commitdiff
2007-07-30 jproctertest cc change revoked. tree | commitdiff
2007-07-30 jproctertest cc tree | commitdiff
2007-07-30 jprocterjavadoc tree | commitdiff
2007-07-25 jproctertodo comment tree | commitdiff
2007-07-25 jprocterfix crossRef retrieval so either protein OR nucleotide tree | commitdiff
2007-07-25 jprocteruniprot synonym tree | commitdiff
2007-07-25 jprocterbetter vamsas tree io (for when there are no nodemappings) tree | commitdiff
2007-07-25 jprocterbugfix for vamsas demo tree | commitdiff
2007-07-25 jprocterIO rearrangement for AMSAFile output tree | commitdiff
2007-07-25 jprocterbugfix for vamsas demo and IO rearrangement for AMSAFil... tree | commitdiff
2007-07-13 jprocterpreliminary IO classes - read javadoc for purpose tree | commitdiff
2007-07-13 jprocterpickmanager on sequence and alignment position, vamsas... tree | commitdiff
2007-07-13 jprocternew DBRef management and generalised source and entry... tree | commitdiff
2007-07-13 jproctermore semantic groupings of dbs tree | commitdiff
2007-07-13 jprocterdebugged mappings and translated sequence recovery tree | commitdiff
2007-07-13 jprocterpreliminary states for pca distribution io tree | commitdiff
2007-07-13 jprocterpreliminary methods for detecting internal sequence... tree | commitdiff
2007-07-13 jprocterbugfix tree | commitdiff
2007-07-13 jproctermapping bug fixes tree | commitdiff
2007-07-13 jprocterbasic idea for recognising that a feature is a coding... tree | commitdiff
2007-07-13 jprocterbugfixes, partially working code for translation using... tree | commitdiff
2007-07-13 jproctercomments for future viz/detection of internal sequence... tree | commitdiff
2007-07-13 jprocterupdated to iscb demo vamsas-client version tree | commitdiff
2007-07-13 jprocterrefactored form of vamsas document interaction code tree | commitdiff
2007-07-13 jproctermethods for traversing database reference space tree | commitdiff
2007-07-13 jprocternew search method for finding references like other... tree | commitdiff
2007-07-13 jprocterbugfix and comments tree | commitdiff
2007-07-13 jproctermoved to castor-1.1-cycle - a specially patched version... tree | commitdiff
2007-06-18 jprocterensure lines are drawn from first alignment column. tree | commitdiff
2007-06-18 jprocter1.1 methods tree | commitdiff
2007-06-17 jproctervamsas-client-1.2 schema (mappings and Treenodes) and... tree | commitdiff
2007-06-17 jproctervamsas mouseOvers tree | commitdiff
2007-06-17 jprocterenable mouseover between DNA coding regions and transla... tree | commitdiff
2007-06-17 jprocterenable mouseover between DNA coding regions and transla... tree | commitdiff
2007-06-17 jprocterfix aligned DNA codon translation bug(s) and generate... tree | commitdiff
2007-06-17 jprocterrecovery of identical dataset sequence object on undo... tree | commitdiff
2007-06-17 jprocterAlignedCodonFrame holds mapping information between... tree | commitdiff
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