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JAL-1551 formatting

[jalview.git] / src / jalview / analysis /
2011-08-03 janengelhardtJAL-885; Multi-helix bug is solved; One should think... tree | commitdiff
2011-07-31 janengelhardtJAL-885; StructureConservation row is displayed at... tree | commitdiff
2011-07-29 janengelhardtJAL-885; Implementation of StructureFrequency.java... tree | commitdiff
2011-07-25 janengelhardtStart merging of Laurens Code tree | commitdiff
2011-07-21 jprocterretrieve all sequences matching a particular name ... tree | commitdiff
2011-07-09 jproctertodo re JAL-732 tree | commitdiff
2011-05-30 jprocterbug for clients using NJTree directly - pwtype should... tree | commitdiff
2011-04-07 jprocterresolves JAL-804 tree | commitdiff
2011-02-27 jprocterpatch for JAL-780 tree | commitdiff
2011-02-18 jprocterfix for occasional race conditions tree | commitdiff
2011-01-17 jproctereliminate utf8 compilation errors tree | commitdiff
2011-01-07 jprocterrefactored to use SequenceI tree | commitdiff
2010-11-14 jprocternode rename for deuniquifying trees from web service... tree | commitdiff
2010-09-23 jprocterNPE race condition alert - see JAL-661 tree | commitdiff
2010-09-23 jprocterapply jalview code style tree | commitdiff
2010-09-23 jprocterJalview 2.6 source licence tree | commitdiff
2010-09-02 jprocterfix occasional arrayIndexOutOfBounds when sequences... tree | commitdiff
2010-08-18 jprocteroutput the eigenvector matrix in full: JAL-616 tree | commitdiff
2010-06-29 jprocterpatch for npe that occurs for importing Jalview project... tree | commitdiff
2010-05-12 jprocterfix for JAL-527 tree | commitdiff
2010-04-30 jprocterjalview 2.5 release banner tree | commitdiff
2010-04-28 jprocterfind incrementally searches ID then subsequence matches. tree | commitdiff
2010-04-14 jprocterfix order/reverse order issue for sortByFeature tree | commitdiff
2009-11-02 jproctergracefully cope with non-standard nucleotide or amino... tree | commitdiff
2009-08-21 jprocter1.1 compatibility tree | commitdiff
2009-08-21 jprocternew sortbyPID for specific start/end region tree | commitdiff
2009-08-21 jproctercommented debug lines indicating calculation progress tree | commitdiff
2009-08-21 jprocterstart/stop for per-group consensus calculation tree | commitdiff
2009-08-21 jprocterstore symbol profile and extract it for display tree | commitdiff
2009-08-21 jprocterroutines for creating groups over an alignment tree | commitdiff
2009-07-24 jproctercomplete alignment annotation row procedure tree | commitdiff
2009-06-24 jproctertake the average of the three consecutive codon sites... tree | commitdiff
2009-06-19 jprocterdebug tree | commitdiff
2009-06-08 jprocterapply gpl development license tree | commitdiff
2009-06-01 jprocterlook in database references for more ID strings to... tree | commitdiff
2009-06-01 jprocterapply method for a NodeTransform to nodes in a tree tree | commitdiff
2009-02-06 jprocterfix occasional nullpointer ref when seq ID retrieval... tree | commitdiff
2008-12-19 jproctersort by length tree | commitdiff
2008-12-15 jproctertemporary fix and note about null feature group mucking... tree | commitdiff
2008-12-08 jprocteroutput average score to stdout tree | commitdiff
2008-12-08 jprocternew sort functions for ordering sequence by annotated... tree | commitdiff
2008-12-01 jproctermatch case switch should work for both sequence ID... tree | commitdiff
2008-11-12 jprocterminor translation bug tree | commitdiff
2008-11-12 jprocteravoid exception if search returns valid object but... tree | commitdiff
2008-09-04 jproctermerge from 2_4_Release branch tree | commitdiff
2008-08-26 jprocterensure successive matches to a regex have distinct... tree | commitdiff
2008-08-19 jprocterbetter check for molecule type when identifying interna... tree | commitdiff
2008-08-06 jprocterextra checks for datasetsequence for when getDbRefs... tree | commitdiff
2008-06-30 jprocterjava 1.1 compatibility tree | commitdiff
2008-04-17 jprocterjavadoc and quiet flag tree | commitdiff
2008-04-10 jprocterquick fix for conservation calculation when residue... tree | commitdiff
2008-01-29 jprocterreinstated proper case insensitive searching for both... tree | commitdiff
2007-12-21 jprocterfurther bugfix and annotation transfer for dna/protein... tree | commitdiff
2007-12-21 jprocterjavadoc and bugfix tree | commitdiff
2007-11-16 jproctertodo for sortbyPID operating on current selection rathe... tree | commitdiff
2007-11-16 jprocterrefactor abstract sequence fetching and DBSource machin... tree | commitdiff
2007-11-12 jproctercrossrefs have properly updated pdbId lists tree | commitdiff
2007-09-07 jprocterformatting and ensure that dataset is actually searched... tree | commitdiff
2007-08-01 jprocternull pointer exception bug fix tree | commitdiff
2007-07-25 jprocterfix crossRef retrieval so either protein OR nucleotide 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 jproctermethods for traversing database reference space tree | commitdiff
2007-06-17 jprocterfix aligned DNA codon translation bug(s) and generate... tree | commitdiff
2007-06-17 jprocterjavadoc tree | commitdiff
2007-05-22 jprocterfixed jalview 2.3 bug where gapped aligned codons were... tree | commitdiff
2007-04-26 jprocteradded 'sort by sequence associated annotation score' tree | commitdiff
2007-04-26 jprocterbug fixed basic score extraction by regex on descriptio... tree | commitdiff
2007-04-26 jprocterbasic methods for adding scores extracted from description tree | commitdiff
2007-04-25 jprocterFunctions for parsing free text properties on sequences... tree | commitdiff
2007-04-25 jprocterAlignmentAnnotation: added annotation score attribute... tree | commitdiff
2007-04-11 jprocterfixed base lookup bug in dna pairwise alignment and... tree | commitdiff
2007-03-19 jproctertranslate aligned cDNA to aligned peptide tree | commitdiff
2007-02-07 amwaterhouseFormatting tree | commitdiff
2007-01-30 amwaterhouseAny character non aa or nucleotide is a space tree | commitdiff
2007-01-25 amwaterhouse1.1 enabled tree | commitdiff
2007-01-23 amwaterhouseHidden representatives moved from sequence to viewport tree | commitdiff
2007-01-23 jprocterrefactoring (added seqIndex/resIndex state for incremen... tree | commitdiff
2007-01-23 jprocterrefactored search algorithm from gui classes tree | commitdiff
2006-12-14 amwaterhouseone less cast tree | commitdiff
2006-12-06 jproctergeneral pairwise substitution score models for pairwise... tree | commitdiff
2006-12-05 amwaterhousesequence is char [] tree | commitdiff
2006-11-28 amwaterhouseoff by one group consensus calculation tree | commitdiff
2006-11-21 jprocterfix unselectable tree leaf nodes when node mapping... tree | commitdiff
2006-11-15 amwaterhouseCheck if groupWidth is greater than sequence width tree | commitdiff
2006-11-09 amwaterhouse1.1 compatible tree | commitdiff
2006-11-07 amwaterhousewarning note added to consequence tree | commitdiff
2006-11-07 amwaterhousehidden seqs and setOrder bug fixed tree | commitdiff
2006-11-06 amwaterhouseIf start is not zero, we need to put -- at the start tree | commitdiff
2006-10-26 amwaterhouseError message changed tree | commitdiff
2006-10-26 amwaterhouseSequences may be hidden, not in this aligment tree | commitdiff
2006-10-24 amwaterhousesetOrder is public tree | commitdiff
2006-10-24 jprocterfixes bug reported by Christopher Tan (help@jalview... tree | commitdiff
2006-10-12 amwaterhouseComment out debug to compile applet tree | commitdiff
2006-10-11 jprocterfixes exception (array index out of bounds - due to... tree | commitdiff
2006-10-10 jprocterrefined id matching to pick the closest match (by lengt... tree | commitdiff
2006-10-10 jprocterdebug message bugfix on duplicate tree leaf names. tree | commitdiff
2006-10-10 jprocterbugfix for dodgy trees which contain the same leafname... tree | commitdiff
2006-10-10 amwaterhouseMaxResidue must be at least 2 tree | commitdiff
2006-10-10 amwaterhouseOptimized tree | commitdiff
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