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FileParse object can be re-used to read different files concatenated together
[jalview.git] / src / jalview / datamodel /
2007-03-19 jprocterinitial support for EMBL file parsing. tree | commitdiff
2007-03-19 jprocterequals operation used for canonicalisation of DBRefList... tree | commitdiff
2007-03-19 jproctermapping implemented by MapList added to DBRefEntry. tree | commitdiff
2007-03-19 jprocterjavadoc typo tree | commitdiff
2007-03-19 jproctercopy constructor tree | commitdiff
2007-02-07 amwaterhouseFormatting tree | commitdiff
2007-01-31 amwaterhouseUnique name for new group and treegroup tree | commitdiff
2007-01-31 amwaterhousemake new dataset seq if residues deleted tree | commitdiff
2007-01-31 amwaterhousecopy feature: check for null values tree | commitdiff
2007-01-30 amwaterhouseCheck valid residues in ss tree | commitdiff
2007-01-29 amwaterhouseDescription added tree | commitdiff
2007-01-26 amwaterhouseAnnotationId is hashcode of object tree | commitdiff
2007-01-26 amwaterhouseOnly set the sequence oncecvs diff datamodel/Alignment... tree | commitdiff
2007-01-25 amwaterhouseAnnotation adjustment moved to EditCommand tree | commitdiff
2007-01-24 amwaterhouseAdjustAnnotations needs position, number and insert tree | commitdiff
2007-01-23 amwaterhouseHidden representatives moved from sequence to viewport tree | commitdiff
2007-01-19 jprocterdatasetSequence derive method and some checks tree | commitdiff
2007-01-19 jprocterjavadoc tree | commitdiff
2007-01-19 jprocteradded sequence feature copy constructor. tree | commitdiff
2007-01-18 amwaterhouseSet description on copy tree | commitdiff
2007-01-18 amwaterhouseIs secondary structure label modified tree | commitdiff
2006-12-21 amwaterhousecheck on sequence length tree | commitdiff
2006-12-21 amwaterhousegetSequenceAsString tree | commitdiff
2006-12-21 amwaterhousegetSequenceAsString tree | commitdiff
2006-12-21 amwaterhouseremove unnecessary import tree | commitdiff
2006-12-21 jproctertype change tree | commitdiff
2006-12-14 amwaterhouseWatch out for - symbol lin jnet files tree | commitdiff
2006-12-14 amwaterhouseAre the labels all secondary Strutures? are the display... tree | commitdiff
2006-12-07 amwaterhousedont add char[] ref to a string tree | commitdiff
2006-12-06 jproctergeneral pairwise substitution score models for pairwise... tree | commitdiff
2006-12-05 amwaterhouseSequence is char [] tree | commitdiff
2006-11-24 amwaterhouseFix load 1 col hidden bug tree | commitdiff
2006-11-23 amwaterhouseDont make groups of hidden sequences tree | commitdiff
2006-11-20 amwaterhousewarning message changed tree | commitdiff
2006-11-20 amwaterhouseMust copy old dbrefs tree | commitdiff
2006-11-13 amwaterhouseDont readd identical DBRef tree | commitdiff
2006-11-13 amwaterhouseSequence colour moved to viewport tree | commitdiff
2006-11-13 amwaterhouseText colour for group tree | commitdiff
2006-11-08 amwaterhouseSet description tree | commitdiff
2006-11-08 amwaterhousecurrentSeq and set description in dataset tree | commitdiff
2006-11-06 amwaterhouseOnly calculate consenus from start to end tree | commitdiff
2006-11-03 amwaterhouseConsensus may already have been removed tree | commitdiff
2006-10-30 amwaterhousedeleteSequenceFeature tree | commitdiff
2006-10-27 amwaterhouseIf sequence is null, dont add it tree | commitdiff
2006-10-27 amwaterhouseNew padgaps works out number of gaps to insert, delete tree | commitdiff
2006-10-26 amwaterhouseNo need to reduce length if inserting more gaps at... tree | commitdiff
2006-10-26 amwaterhouseCheck if hiddenSequence has been deleted tree | commitdiff
2006-10-25 amwaterhouseWe can delete sequence 0 tree | commitdiff
2006-10-25 amwaterhouseCheck hiddenSequence before placing in tmp tree | commitdiff
2006-10-25 amwaterhouseAdjusts hiddenColumns correctly tree | commitdiff
2006-10-24 amwaterhousechangeCase, removeGaps moved to commands package tree | commitdiff
2006-10-24 amwaterhousemaxIdLength redundant, deleteCols, trimLeft, removeGaps... tree | commitdiff
2006-10-24 amwaterhouseIts historycvs remove jalview/datamodel/HistoryItem... tree | commitdiff
2006-10-15 jprocterfixed array out of bounds exception in copy constructor tree | commitdiff
2006-10-12 amwaterhouseConvenient function findEndRes tree | commitdiff
2006-10-12 amwaterhouseOverview may request index beyond alignment height tree | commitdiff
2006-10-12 amwaterhouseHiddenSequences now array, not hashtable tree | commitdiff
2006-10-10 amwaterhouseRemove growing hashtable tree | commitdiff
2006-10-10 amwaterhouse1.1 compatible tree | commitdiff
2006-10-10 amwaterhouseaaIndex replaces aaHash tree | commitdiff
2006-10-09 jprocterfixed getCompactAlignment method to return proper cigar... tree | commitdiff
2006-10-06 jprocterjavadoc tree | commitdiff
2006-10-06 jprocternew getVisibleContigs method mirrors the getVisibleCont... tree | commitdiff
2006-10-06 amwaterhouseAAFrequency optimized tree | commitdiff
2006-09-07 jprocteradded copy consensus sequence to consensus annotation... tree | commitdiff
2006-09-05 jproctergetVisibleContigs() returns start and end positions... tree | commitdiff
2006-09-05 jprocterjavadoc on contigs tree | commitdiff
2006-08-29 amwaterhouseSequenceMapping updated tree | commitdiff
2006-08-22 jproctergetSequenceStrings() bug fixed. tree | commitdiff
2006-08-22 amwaterhousemake 1.1 compatible tree | commitdiff
2006-08-22 jprocterhidden region recovery in JPred and new hidden region... tree | commitdiff
2006-08-21 amwaterhouseheader updated tree | commitdiff
2006-08-21 amwaterhouse1.1 compatible tree | commitdiff
2006-08-21 jprocterremoveGaps method can record changes in alignment colum... tree | commitdiff
2006-08-21 jprocterfix for truncation of sequence associated annotation... tree | commitdiff
2006-08-21 jprocteradded shiftList to record changes in alignment column... tree | commitdiff
2006-08-21 jprocterremove gaps method from AlignFrame.remove_gaps_actionPe... tree | commitdiff
2006-08-20 jprocterjavadoc tree | commitdiff
2006-08-18 amwaterhousedont remove all representative seqs on delete groups tree | commitdiff
2006-08-18 amwaterhouseremove all representative seqs on delete groups tree | commitdiff
2006-08-17 jproctermoved visible sub-alignment extraction and update from... tree | commitdiff
2006-08-17 jprocterjavadoc tree | commitdiff
2006-08-15 amwaterhouseSelect revealed seqs tree | commitdiff
2006-08-15 amwaterhouseMove features to dataset tree | commitdiff
2006-08-14 amwaterhousefindSequenceMatch returns multiple sequences tree | commitdiff
2006-08-14 jprocterfixed off by one bug in end sequence from getSubSequenc... tree | commitdiff
2006-08-14 jprocterend<start for empty sequences in Sequence[] from SeqCigar[] tree | commitdiff
2006-08-14 amwaterhouseelementAt instead of get for 1.1 compatibility tree | commitdiff
2006-08-14 jprocterfixing residue clip bug in MsaWSThread and adding minim... tree | commitdiff
2006-08-13 jprocterfixed end-residue bug and subjob panel names bug tree | commitdiff
2006-08-11 jproctermultiple web service jobs from visible blocks of an... tree | commitdiff
2006-08-10 amwaterhouse1.1 compatible tree | commitdiff
2006-08-09 jprocternew SequenceI method for making a sub sequence from... tree | commitdiff
2006-08-09 jprocteralignment from seqCigars will correctly mark deleted... tree | commitdiff
2006-08-09 jprocterrefactored hidden regions methods and made an Alignment... tree | commitdiff
2006-08-09 amwaterhouseSave links and scores and keyValues for features tree | commitdiff
2006-08-08 amwaterhouseOut by 1 error on show columns tree | commitdiff
2006-08-07 amwaterhouse1.1 compatible tree | commitdiff
2006-08-07 amwaterhousecatch out of memory error for consensus when loading... tree | commitdiff
2006-08-04 jprocterrecover original data for tree and pca as alignment... tree | commitdiff
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