Check hiddenSequence before placing in tmp
[jalview.git] / src / jalview / gui / AlignFrame.java
2006-10-25 amwaterhouseviewport.hasHiddenColumns updated after undo/redo performed
2006-10-24 amwaterhouseHistoryItem replaced by CommandI
2006-10-18 amwaterhouseNo longer a FeatureListener
2006-10-12 amwaterhouseIf conservation is null, disable Blosum62 and conservat...
2006-10-10 amwaterhouseNo need to find index when deleting
2006-10-10 amwaterhouseConsensus and conservation updated in threads
2006-10-09 jprocterimported Vamsas bindings and alpha vamsas client code...
2006-10-06 jprocterAdded filter so that input to a JPred job is *solely...
2006-10-06 amwaterhouseAAFrequency optimized
2006-10-05 amwaterhouseMultiple Views
2006-09-27 jprocterfixed tree building exception when one residue or a...
2006-08-29 amwaterhousejnetfile can be loaded onto alignment
2006-08-21 amwaterhouseheader updated
2006-08-21 jprocterRefactored Jnet and added hidden columns support.
2006-08-17 jproctermoved visible sub-alignment extraction and update from...
2006-08-16 amwaterhouseFire alignment changed if seqs hidden / revealed
2006-08-15 amwaterhouseSetselectiongroup null on hide
2006-08-10 amwaterhouseOnly add 1 feature settings table
2006-08-10 amwaterhouseInvert column selection
2006-08-09 amwaterhouseNull hidden cols check
2006-08-04 jprocterrecover original data for tree and pca as alignment...
2006-07-28 amwaterhouseRemove system.out
2006-07-27 amwaterhouseseq size cant be less than 2 for tree
2006-07-26 amwaterhouseback to org.biojava
2006-07-26 amwaterhouseColumn hide/show updated
2006-07-25 amwaterhouseColumnSelection moved to datamodel
2006-07-25 amwaterhouseRepaint
2006-07-25 amwaterhousejalview.biojava
2006-07-25 amwaterhouseFileLoader replaces paste when Dropping files
2006-07-21 amwaterhousegetViewAsString can ignore sequenceGroup
2006-07-21 amwaterhouseShow hide cols and rows
2006-07-19 amwaterhouseSave output use whole alignment
2006-07-19 amwaterhouseCopy works with selection area
2006-07-18 amwaterhouseUse selection area with hidden columns in calculations
2006-07-13 amwaterhouseDAS feature retrieval updated
2006-07-12 amwaterhousesequences are private in SequenceGroup
2006-07-07 amwaterhousechangeColour is public
2006-06-23 amwaterhouseParse HTML links from jalview features file
2006-06-23 amwaterhouseNo need for repaint
2006-06-22 amwaterhouseFetch DBRefs
2006-06-15 amwaterhouseCorrect citation
2006-06-09 amwaterhouseFeature and annotation parsing moved to io
2006-06-07 amwaterhouseWrap alignment added to preferences
2006-06-07 amwaterhousenew DasSequenceFetcher
2006-05-17 amwaterhouseRestrict annotation panel to 50% window on load
2006-05-12 amwaterhousepass viewport to fileloader, as we need to fireproperty...
2006-05-11 amwaterhouseRecently loaded files, urls, append sequences to Alignment
2006-05-10 amwaterhouseCopy and paste of annotations with seqrefs
2006-04-28 amwaterhouseIf autoCalculate selected, recalculate immediately
2006-04-19 amwaterhouseMultiple views, alignpanels not being used
2006-04-19 amwaterhouseAlignment might not have any annotations
2006-04-06 amwaterhouseHide ref to HiddenRegion
2006-04-06 amwaterhouseMust copy feature settings from one frame to another...
2006-04-05 amwaterhousePadgap history
2006-04-04 amwaterhouseloadDataFile is public
2006-04-04 amwaterhouseAutocalculate consensus
2006-03-24 amwaterhouseLoad data file added
2006-03-16 amwaterhousehistoryItem.restore
2006-03-08 amwaterhouseIdentifyFile should not be static
2006-02-24 amwaterhouseCannot delete residues
2006-02-16 amwaterhousetranslate cDNA adjusted
2006-02-16 amwaterhouseRead startgroup and endgroup in features file
2006-02-15 amwaterhouseDont use FeatureFetcher if nucleotide
2006-02-13 amwaterhouseParsing features file - dont adjust for alignment position
2006-02-09 amwaterhouseNew implementation for holding search results
2006-02-08 amwaterhouseCopy dataset annotations for paste(this)
2006-02-03 amwaterhouseReading features files readded as ref to FeatureRendere...
2006-01-30 amwaterhouseDrop annotations onto alignment
2006-01-11 jprocterrefactored Alignframe padGaps code to Alignment and...
2005-12-22 amwaterhouseRemove import
2005-12-08 amwaterhouseIf dataset seq exists for paste to existing alignment...
2005-12-06 amwaterhouseAdd features to dataset
2005-12-06 amwaterhouseAfter merge
2005-10-03 amwaterhouseRemove development code
2005-09-30 amwaterhouseRemove redundancy in Eclipse
2005-09-22 amwaterhouseCreate instance of FormatAdapter
2005-09-22 amwaterhouseIf Mac user hasnt selected file format, give warning
2005-09-21 amwaterhouseSequences must be aligned before PCA
2005-09-20 amwaterhousePCAPanel just requires viewport
2005-09-19 amwaterhouseDont add ServiceListeners if desktop is null
2005-09-15 amwaterhouseremove system.out
2005-09-14 amwaterhouseCopy and paste uses FASTA format
2005-09-14 amwaterhousePCA is in outofmemory try-catch
2005-09-12 amwaterhouseRemove gaps in regions, not char by char
2005-09-12 amwaterhouseUpdate overview in alignmentChanged
2005-09-08 amwaterhouseMove tree property change to treePanel
2005-09-08 amwaterhouseIf no consensus, disable certain colour options
2005-09-01 amwaterhousefirePropertyChange if sequences deleted
2005-09-01 amwaterhouseUse propertyListener for alignment edits
2005-08-30 amwaterhouseUpdate colours after remove left, cut, paste
2005-08-29 amwaterhouseReset all colour schemes after gaps removed
2005-08-29 amwaterhouseKeep startRes the same after removing columns
2005-08-29 amwaterhouseReset ClustalX after removing gaps
2005-08-26 amwaterhouseWhen saving, use print instead of println
2005-08-23 amwaterhouseDont make new frame reference in Buildwebservicemenu
2005-08-23 amwaterhouseSet size and location of frame before visible
2005-08-22 amwaterhouseCheck for null colour
2005-08-22 amwaterhouseConservation colour scheme is no more
2005-08-18 amwaterhouseAdd name and mouse listener to new user colour menuitems
2005-08-18 amwaterhouseBlosum62 PID and conservation bug fixed
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