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use OOMwarning to warn user when out of Memory occurs
[jalview.git]
/
src
/
jalview
/
io
/
2007-04-20
jprocter
annotation and seqs vectors are protected members for...
tree
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commitdiff
2007-04-18
amwaterhouse
dont set seqref null if index incorrect
tree
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commitdiff
2007-04-18
amwaterhouse
adjustForAlignment on new seq ref
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commitdiff
2007-04-18
jprocter
java 1.1 compliance
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commitdiff
2007-04-17
jprocter
bugfix.
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commitdiff
2007-04-17
jprocter
use of suffix string (filename.blc#suffixstring) to...
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commitdiff
2007-04-17
jprocter
refactored to allow seeks on a FileParse datasource...
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commitdiff
2007-04-17
jprocter
javadoc
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commitdiff
2007-04-13
amwaterhouse
FeatureRenderer takes alignmentPanel
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commitdiff
2007-04-05
amwaterhouse
Pasted file doesnt have title and not reloadable
tree
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commitdiff
2007-04-05
amwaterhouse
call getAllframes on desktop instance
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commitdiff
2007-04-04
amwaterhouse
flag for dasCoordSysFound added
tree
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commitdiff
2007-03-19
jprocter
DAS features mapped to local reference frame
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commitdiff
2007-03-19
jprocter
disambiguate jalview.datamodel.Mapping from castor...
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commitdiff
2007-02-27
amwaterhouse
Use paintAlignment
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commitdiff
2007-02-27
amwaterhouse
remove p+3 < query.length
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commitdiff
2007-02-07
amwaterhouse
Formatting
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commitdiff
2007-02-05
amwaterhouse
applet can define groups as parameters
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commitdiff
2007-02-02
amwaterhouse
Dont add group if seqs not found
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commitdiff
2007-01-30
amwaterhouse
Any character non aa or nucleotide is a space
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commitdiff
2007-01-30
amwaterhouse
Use util toHexString
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commitdiff
2007-01-30
amwaterhouse
Output groups in annotation file
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commitdiff
2007-01-29
amwaterhouse
SequenceGroup parsing added to annotation file
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commitdiff
2007-01-25
amwaterhouse
Remove unneccessary lines
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commitdiff
2007-01-25
amwaterhouse
Only output visible annotations
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commitdiff
2007-01-25
jprocter
reinstating class implementation.
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commitdiff
2007-01-24
amwaterhouse
output now takes alignment, not just sequences
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commitdiff
2007-01-24
amwaterhouse
Extension to fastaFile for myhits
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commitdiff
2007-01-19
amwaterhouse
Need to know protocol to load anntotations
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commitdiff
2007-01-18
amwaterhouse
Add the last sequence before annotations
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commitdiff
2007-01-18
amwaterhouse
1.1 enabled
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commitdiff
2007-01-18
amwaterhouse
File Parsing returns Alignments, not Sequence[]
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commitdiff
2007-01-18
amwaterhouse
Descriptions can be added to annotations
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commitdiff
2007-01-04
amwaterhouse
Reads in anything following seq id as a description
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commitdiff
2007-01-04
amwaterhouse
HEADER and ATOM must be position 0
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commitdiff
2006-12-21
jprocter
description from vamsas sequence and file type change
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commitdiff
2006-12-21
amwaterhouse
remove unnecessary import
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commitdiff
2006-12-19
amwaterhouse
description may be null
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commitdiff
2006-12-14
amwaterhouse
set sequence_ref alignment
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commitdiff
2006-12-14
amwaterhouse
Are the labels all secondary Strutures? are the display...
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commitdiff
2006-12-11
jprocter
fixed introduced bug (doh)
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commitdiff
2006-12-11
jprocter
clarified help documentation for annotation file format...
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commitdiff
2006-12-05
amwaterhouse
Sequence is char []
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commitdiff
2006-11-30
amwaterhouse
DasRegistry moved again
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commitdiff
2006-11-28
jprocter
EBI web service interface update (and SequenceFetcher...
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commitdiff
2006-11-21
amwaterhouse
Memory check on loading file
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commitdiff
2006-11-21
amwaterhouse
Set fsettings in constuctor
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commitdiff
2006-11-20
amwaterhouse
Cancel added
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commitdiff
2006-11-14
amwaterhouse
Single seq Blc file detection
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commitdiff
2006-11-13
amwaterhouse
Use j not i
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commitdiff
2006-11-13
amwaterhouse
Fasta files with * read not identified as BLC
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commitdiff
2006-11-13
amwaterhouse
Querystring made from line tokenized seq name, seq...
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commitdiff
2006-11-09
amwaterhouse
alignFrame.setFileName
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commitdiff
2006-11-06
amwaterhouse
Remember fileName in alignFrame
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commitdiff
2006-11-02
amwaterhouse
dasregistry is now dasregistry.org
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commitdiff
2006-10-30
amwaterhouse
Append html
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commitdiff
2006-10-24
amwaterhouse
Only send one call per sequence at the moment
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commitdiff
2006-10-18
amwaterhouse
Wait for response from server before next sequence
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commitdiff
2006-10-18
amwaterhouse
parseDescriptionHTML
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commitdiff
2006-10-10
amwaterhouse
aaIndex replaces aaHash
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commitdiff
2006-10-09
jprocter
imported Vamsas bindings and alpha vamsas client code...
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commitdiff
2006-10-06
jprocter
Added filter so that input to a JPred job is *solely...
tree
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commitdiff
2006-10-05
amwaterhouse
BatchSize now 10
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commitdiff
2006-10-05
amwaterhouse
OutOfMemoryError test
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commitdiff
2006-10-03
amwaterhouse
Send DAS requests in batches of 20
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commitdiff
2006-10-03
amwaterhouse
DB seqs may be lower or upper case
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commitdiff
2006-08-30
amwaterhouse
jnet file is 1 to 1 mapping
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commitdiff
2006-08-29
amwaterhouse
No stacktrace
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commitdiff
2006-08-29
amwaterhouse
createMapping alreadyMapped
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commitdiff
2006-08-21
amwaterhouse
header updated
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commitdiff
2006-08-21
amwaterhouse
Remove system.out
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commitdiff
2006-08-18
amwaterhouse
Jalview features format adds links as hrefs
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commitdiff
2006-08-17
amwaterhouse
OptionPane invokeLater
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commitdiff
2006-08-15
amwaterhouse
Acknowledgement
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commitdiff
2006-08-15
amwaterhouse
WRITEABLE_FORMATS and READABLE_FORMATS string []
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commitdiff
2006-08-14
amwaterhouse
Stockholm parser added
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commitdiff
2006-08-14
amwaterhouse
Stockholm parser
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commitdiff
2006-08-14
amwaterhouse
Do a loop for multiple seq matches
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commitdiff
2006-08-14
amwaterhouse
Correct test string
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commitdiff
2006-08-11
amwaterhouse
Desktop is null if -noDisplay is set
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commitdiff
2006-08-11
amwaterhouse
Make a new FeatureRenderer
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commitdiff
2006-08-10
amwaterhouse
Comment out start and end refs
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commitdiff
2006-07-28
amwaterhouse
output source in gff file
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commitdiff
2006-07-27
amwaterhouse
remove unnecessary constructor
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commitdiff
2006-07-27
amwaterhouse
Use DBRefSource.PDB
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commitdiff
2006-07-26
jprocter
Ignore list created
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commitdiff
2006-07-26
amwaterhouse
back to org.biojava
tree
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commitdiff
2006-07-25
amwaterhouse
jalview.biojava
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commitdiff
2006-07-25
amwaterhouse
PDB format added
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commitdiff
2006-07-21
amwaterhouse
Put DBRefFether in a new thread
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commitdiff
2006-07-21
amwaterhouse
Remove start end for now??
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commitdiff
2006-07-21
amwaterhouse
Add pdb ref
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commitdiff
2006-07-21
amwaterhouse
DBRefs now array
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commitdiff
2006-07-19
amwaterhouse
Make new seq[] when modifying hidden bits
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commitdiff
2006-07-19
amwaterhouse
Count uniprot refs
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commitdiff
2006-07-19
amwaterhouse
Use Selection group to define sequence range to fetch...
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commitdiff
2006-07-18
amwaterhouse
omitHiddenColumns
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commitdiff
2006-07-17
amwaterhouse
Towards an auto dbref fetcher
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commitdiff
2006-07-14
amwaterhouse
Just fetch features for selected seqs
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commitdiff
2006-07-13
amwaterhouse
Selected DAS sources may differ from default
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commitdiff
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