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Mapping to PDB added
[jalview.git]
/
src
/
jalview
/
io
/
2005-11-08
amwaterhouse
Preliminary storeJalview
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commitdiff
2005-11-04
amwaterhouse
Id parsing moved to Sequence
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commitdiff
2005-11-04
amwaterhouse
REmove system.out
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commitdiff
2005-11-02
amwaterhouse
Java 1.5 bug note
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commitdiff
2005-11-02
amwaterhouse
Allow residue prefix to dataset
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commitdiff
2005-11-02
amwaterhouse
Only add first Id to suggestedIds
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commitdiff
2005-11-02
amwaterhouse
2CdbPrefix true by default
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commitdiff
2005-11-02
amwaterhouse
Output jvsuffix, dbref
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commitdiff
2005-11-01
amwaterhouse
Inform user about visual alignment, not dataset updates
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commitdiff
2005-11-01
amwaterhouse
Adjust seq limits for visual and dataset sequences
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commitdiff
2005-10-31
amwaterhouse
DBPrefix and JVSuffix added
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commitdiff
2005-10-31
amwaterhouse
Prompt before blasting
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commitdiff
2005-10-31
amwaterhouse
equalsIgnoreCase CLUSTAL
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commitdiff
2005-10-31
amwaterhouse
Catch numberformatexceptions
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commitdiff
2005-10-27
amwaterhouse
Remove system.out
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commitdiff
2005-10-26
amwaterhouse
Parsing updates
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commitdiff
2005-10-26
amwaterhouse
vamsasDemo new branch
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commitdiff
2005-10-07
amwaterhouse
Quick fix for reading sequence
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commitdiff
2005-10-05
amwaterhouse
Sequence start end added for the time being
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commitdiff
2005-09-30
amwaterhouse
Remove redundancy in Eclipse
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commitdiff
2005-09-22
amwaterhouse
Create instance of FormatAdapter
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commitdiff
2005-09-22
amwaterhouse
Wrap alignment with annotations
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commitdiff
2005-09-22
amwaterhouse
Check if filefilter is null
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commitdiff
2005-09-15
amwaterhouse
Use equalsIgnoreCase
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commitdiff
2005-09-12
amwaterhouse
Always return true for directories
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commitdiff
2005-09-01
amwaterhouse
Add header to file
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commitdiff
2005-08-23
amwaterhouse
Sleep for longer
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commitdiff
2005-08-23
amwaterhouse
Finalize formats
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commitdiff
2005-08-23
amwaterhouse
Regex should not be static in file loader
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commitdiff
2005-08-23
amwaterhouse
Is fileChooser instanceof Basic
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commitdiff
2005-08-22
jprocter
fixed hanging on job finished bug.
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commitdiff
2005-08-18
amwaterhouse
Return if UNIPROT_CACHE is null
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commitdiff
2005-08-17
amwaterhouse
No basicDirectoryModel on the Mac
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commitdiff
2005-08-17
amwaterhouse
Error reply is kept separate from file type
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commitdiff
2005-08-17
amwaterhouse
Put basic file chooser test in try catch loop
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commitdiff
2005-08-16
amwaterhouse
Remove redundant imports
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commitdiff
2005-08-15
amwaterhouse
Use default fileChooser for now
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commitdiff
2005-08-09
amwaterhouse
Cache.getDefault
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commitdiff
2005-08-09
amwaterhouse
Try/catch loading default icons
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commitdiff
2005-08-03
amwaterhouse
1 & -1
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commitdiff
2005-08-03
amwaterhouse
FileLoading removed from desktop
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commitdiff
2005-07-29
amwaterhouse
use 1 & -1 if start/end not specified
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commitdiff
2005-07-11
amwaterhouse
this.installIcons
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commitdiff
2005-07-06
amwaterhouse
Sequence to Uppercase before checksum
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commitdiff
2005-06-30
amwaterhouse
Formatting changes
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commitdiff
2005-06-16
amwaterhouse
dont convert to uppercase
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commitdiff
2005-06-15
amwaterhouse
use .jalview.uniprot.xml
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commitdiff
2005-06-14
amwaterhouse
change name of uniprot file
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commitdiff
2005-06-14
jprocter
Arbitrary decision to keep friendly id name when readin...
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commitdiff
2005-06-13
amwaterhouse
uses paintrefresher
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commitdiff
2005-06-10
amwaterhouse
remove imports
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commitdiff
2005-06-08
amwaterhouse
if missing forward slash
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commitdiff
2005-06-08
amwaterhouse
Formatted source
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commitdiff
2005-06-08
amwaterhouse
GPL license added
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commitdiff
2005-06-02
amwaterhouse
Warn if URL not found
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commitdiff
2005-05-30
jprocter
more robust parsing for DBset/DBname|id1|id2 type ids
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commitdiff
2005-05-27
amwaterhouse
ignores blank lines read in and write out
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commitdiff
2005-05-27
jprocter
better recognition of MSF files.
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commitdiff
2005-05-27
amwaterhouse
Cut and paste changes
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commitdiff
2005-05-27
amwaterhouse
C&P changes
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commitdiff
2005-05-27
jprocter
Added nicer header formatting for MSFfile output.
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commitdiff
2005-05-27
jprocter
Response to bug mantis?id=8187 - some quick hacks to...
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commitdiff
2005-05-27
jprocter
Old MSF Format writer now renamed.
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commitdiff
2005-05-26
jprocter
fairly pointless catch exception error information...
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commitdiff
2005-05-25
amwaterhouse
c&p changed
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commitdiff
2005-05-25
amwaterhouse
use getHexString in util
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commitdiff
2005-05-25
jprocter
doh - compile before commit!
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commitdiff
2005-05-25
jprocter
tidied up system.out messages and moved many to stderr.
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commitdiff
2005-05-24
amwaterhouse
filefilter might not be JalviewFileFilter
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commitdiff
2005-05-24
amwaterhouse
equalsIgnoreCase
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commitdiff
2005-05-23
jprocter
bug fix for wierdness retrieving QUERY sequence index.
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commitdiff
2005-05-20
amwaterhouse
Fasta FASTA
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commitdiff
2005-05-19
amwaterhouse
filechooser has multiple filters
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commitdiff
2005-05-05
jprocter
<No Comment Entered>
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commitdiff
2005-05-05
amwaterhouse
new place for sequencefeaturefetcher
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commitdiff
2005-05-03
jprocter
Better treatment of error states and cancellability...
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commitdiff
2005-05-03
amwaterhouse
formatAdapter.formats, remove redundant code
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commitdiff
2005-05-03
amwaterhouse
Removed as obfuscation of classes wiill change class...
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commitdiff
2005-04-14
amwaterhouse
comment out jnetpropb, h and c
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commitdiff
2005-04-14
amwaterhouse
use webservice info
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commitdiff
2005-04-13
amwaterhouse
use AlignFrame.NEW_WINDOW_WIDTH
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commitdiff
2005-04-11
jprocter
Fixed the job-failed message.
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commitdiff
2005-04-08
amwaterhouse
reads fasta files from uniprot web page
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commitdiff
2005-04-06
jprocter
next version of Jpred functionality using new client...
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commitdiff
2005-04-01
amwaterhouse
ignore jnetconf
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commitdiff
2005-04-01
amwaterhouse
parses jpredfile into new alignment annotation
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commitdiff
2005-03-31
jprocter
doh - stupid jim.
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commitdiff
2005-03-31
jprocter
Added a flag to control if the "/<seq_start>-<seq_end...
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commitdiff
2005-03-30
jprocter
Fixed a sensible default leaf distance (for files where...
tree
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commitdiff
2005-03-23
amwaterhouse
reads MSF files even if PILEUP is missing
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commitdiff
2005-03-23
amwaterhouse
override showSaveDialog to prompt user if file exists
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commitdiff
2005-03-22
amwaterhouse
read start end if available
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commitdiff
2005-03-21
amwaterhouse
identifies more varied blc files
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commitdiff
2005-03-21
amwaterhouse
blc file reader modified
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commitdiff
2005-03-18
amwaterhouse
delete postscript output!!
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commitdiff
2005-03-18
jprocter
Tree io modifications, including support for polytomous...
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commitdiff
2005-03-18
amwaterhouse
remove unused constants
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commitdiff
2005-03-18
amwaterhouse
use new file filter
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commitdiff
2005-03-18
amwaterhouse
align suffix updated
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commitdiff
2005-03-18
amwaterhouse
acknowledge source and modify to take filter
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commitdiff
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git://source.jalview.org / jalview.git / history