Mapping to PDB added
[jalview.git] / src / jalview / io /
2005-11-08 amwaterhousePreliminary storeJalview
2005-11-04 amwaterhouseId parsing moved to Sequence
2005-11-04 amwaterhouseREmove system.out
2005-11-02 amwaterhouseJava 1.5 bug note
2005-11-02 amwaterhouseAllow residue prefix to dataset
2005-11-02 amwaterhouseOnly add first Id to suggestedIds
2005-11-02 amwaterhouse2CdbPrefix true by default
2005-11-02 amwaterhouseOutput jvsuffix, dbref
2005-11-01 amwaterhouseInform user about visual alignment, not dataset updates
2005-11-01 amwaterhouseAdjust seq limits for visual and dataset sequences
2005-10-31 amwaterhouseDBPrefix and JVSuffix added
2005-10-31 amwaterhousePrompt before blasting
2005-10-31 amwaterhouseequalsIgnoreCase CLUSTAL
2005-10-31 amwaterhouseCatch numberformatexceptions
2005-10-27 amwaterhouseRemove system.out
2005-10-26 amwaterhouseParsing updates
2005-10-26 amwaterhousevamsasDemo new branch
2005-10-07 amwaterhouseQuick fix for reading sequence
2005-10-05 amwaterhouseSequence start end added for the time being
2005-09-30 amwaterhouseRemove redundancy in Eclipse
2005-09-22 amwaterhouseCreate instance of FormatAdapter
2005-09-22 amwaterhouseWrap alignment with annotations
2005-09-22 amwaterhouseCheck if filefilter is null
2005-09-15 amwaterhouseUse equalsIgnoreCase
2005-09-12 amwaterhouseAlways return true for directories
2005-09-01 amwaterhouseAdd header to file
2005-08-23 amwaterhouseSleep for longer
2005-08-23 amwaterhouseFinalize formats
2005-08-23 amwaterhouseRegex should not be static in file loader
2005-08-23 amwaterhouseIs fileChooser instanceof Basic
2005-08-22 jprocterfixed hanging on job finished bug.
2005-08-18 amwaterhouseReturn if UNIPROT_CACHE is null
2005-08-17 amwaterhouseNo basicDirectoryModel on the Mac
2005-08-17 amwaterhouseError reply is kept separate from file type
2005-08-17 amwaterhousePut basic file chooser test in try catch loop
2005-08-16 amwaterhouseRemove redundant imports
2005-08-15 amwaterhouseUse default fileChooser for now
2005-08-09 amwaterhouseCache.getDefault
2005-08-09 amwaterhouseTry/catch loading default icons
2005-08-03 amwaterhouse1 & -1
2005-08-03 amwaterhouseFileLoading removed from desktop
2005-07-29 amwaterhouseuse 1 & -1 if start/end not specified
2005-07-11 amwaterhousethis.installIcons
2005-07-06 amwaterhouseSequence to Uppercase before checksum
2005-06-30 amwaterhouseFormatting changes
2005-06-16 amwaterhousedont convert to uppercase
2005-06-15 amwaterhouseuse .jalview.uniprot.xml
2005-06-14 amwaterhousechange name of uniprot file
2005-06-14 jprocterArbitrary decision to keep friendly id name when readin...
2005-06-13 amwaterhouseuses paintrefresher
2005-06-10 amwaterhouseremove imports
2005-06-08 amwaterhouseif missing forward slash
2005-06-08 amwaterhouseFormatted source
2005-06-08 amwaterhouseGPL license added
2005-06-02 amwaterhouseWarn if URL not found
2005-05-30 jproctermore robust parsing for DBset/DBname|id1|id2 type ids
2005-05-27 amwaterhouseignores blank lines read in and write out
2005-05-27 jprocterbetter recognition of MSF files.
2005-05-27 amwaterhouseCut and paste changes
2005-05-27 amwaterhouseC&P changes
2005-05-27 jprocterAdded nicer header formatting for MSFfile output.
2005-05-27 jprocterResponse to bug mantis?id=8187 - some quick hacks to...
2005-05-27 jprocterOld MSF Format writer now renamed.
2005-05-26 jprocterfairly pointless catch exception error information...
2005-05-25 amwaterhousec&p changed
2005-05-25 amwaterhouseuse getHexString in util
2005-05-25 jprocterdoh - compile before commit!
2005-05-25 jproctertidied up system.out messages and moved many to stderr.
2005-05-24 amwaterhousefilefilter might not be JalviewFileFilter
2005-05-24 amwaterhouseequalsIgnoreCase
2005-05-23 jprocterbug fix for wierdness retrieving QUERY sequence index.
2005-05-20 amwaterhouseFasta FASTA
2005-05-19 amwaterhousefilechooser has multiple filters
2005-05-05 jprocter<No Comment Entered>
2005-05-05 amwaterhousenew place for sequencefeaturefetcher
2005-05-03 jprocterBetter treatment of error states and cancellability...
2005-05-03 amwaterhouseformatAdapter.formats, remove redundant code
2005-05-03 amwaterhouseRemoved as obfuscation of classes wiill change class...
2005-04-14 amwaterhousecomment out jnetpropb, h and c
2005-04-14 amwaterhouseuse webservice info
2005-04-13 amwaterhouseuse AlignFrame.NEW_WINDOW_WIDTH
2005-04-11 jprocterFixed the job-failed message.
2005-04-08 amwaterhousereads fasta files from uniprot web page
2005-04-06 jprocternext version of Jpred functionality using new client...
2005-04-01 amwaterhouseignore jnetconf
2005-04-01 amwaterhouseparses jpredfile into new alignment annotation
2005-03-31 jprocterdoh - stupid jim.
2005-03-31 jprocterAdded a flag to control if the "/<seq_start>-<seq_end...
2005-03-30 jprocterFixed a sensible default leaf distance (for files where...
2005-03-23 amwaterhousereads MSF files even if PILEUP is missing
2005-03-23 amwaterhouseoverride showSaveDialog to prompt user if file exists
2005-03-22 amwaterhouseread start end if available
2005-03-21 amwaterhouseidentifies more varied blc files
2005-03-21 amwaterhouseblc file reader modified
2005-03-18 amwaterhousedelete postscript output!!
2005-03-18 jprocterTree io modifications, including support for polytomous...
2005-03-18 amwaterhouseremove unused constants
2005-03-18 amwaterhouseuse new file filter
2005-03-18 amwaterhousealign suffix updated
2005-03-18 amwaterhouseacknowledge source and modify to take filter
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