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Fasta files with * read not identified as BLC
[jalview.git]
/
src
/
2006-09-27
jprocter
fixed tree building exception when one residue or a...
tree
|
commitdiff
2006-09-18
amwaterhouse
Draw hidden column marker correctly
tree
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commitdiff
2006-09-18
amwaterhouse
click node to select sequences
tree
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commitdiff
2006-09-15
amwaterhouse
Simplified schema
tree
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commitdiff
2006-09-12
amwaterhouse
hideSequence hide all before recalc consensus
tree
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commitdiff
2006-09-12
amwaterhouse
Allow alt for group editing
tree
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commitdiff
2006-09-12
amwaterhouse
For now ignore middle mouse font resize on Mac applet
tree
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commitdiff
2006-09-12
amwaterhouse
Allow alt button for Mac applet group editing
tree
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commitdiff
2006-09-11
amwaterhouse
Comment out lower case colouring for bug fix release
tree
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commitdiff
2006-09-11
amwaterhouse
Remove system.outs
tree
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commitdiff
2006-09-11
amwaterhouse
get idWidth should use italic font when getting size
tree
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commitdiff
2006-09-11
amwaterhouse
Error message if file not found moved for headless...
tree
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commitdiff
2006-09-11
amwaterhouse
visWidth allows borders to be drawn around offscreen...
tree
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commitdiff
2006-09-11
amwaterhouse
Remove system.out
tree
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commitdiff
2006-09-11
amwaterhouse
getVisibleIdWidth() for making images
tree
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commitdiff
2006-09-07
jprocter
added copy consensus sequence to consensus annotation...
tree
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commitdiff
2006-09-05
jprocter
getVisibleContigs() returns start and end positions...
tree
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commitdiff
2006-09-05
jprocter
javadoc on contigs
tree
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commitdiff
2006-09-01
amwaterhouse
Dont look for middle mouse on the Mac
tree
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commitdiff
2006-09-01
amwaterhouse
MAC moved to viewport
tree
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commitdiff
2006-09-01
amwaterhouse
Feature Settings
tree
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commitdiff
2006-08-30
amwaterhouse
GraphHeight might be zero
tree
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commitdiff
2006-08-30
amwaterhouse
jnet file is 1 to 1 mapping
tree
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commitdiff
2006-08-30
amwaterhouse
Remove unnecessary separotor
tree
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commitdiff
2006-08-30
amwaterhouse
Gap added to aa3Hash
tree
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commitdiff
2006-08-30
amwaterhouse
User colours are case sensitive
tree
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commitdiff
2006-08-29
amwaterhouse
Can shrink graph to zero
tree
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commitdiff
2006-08-29
amwaterhouse
No stacktrace
tree
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commitdiff
2006-08-29
amwaterhouse
createMapping alreadyMapped
tree
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commitdiff
2006-08-29
amwaterhouse
Additional repaint
tree
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commitdiff
2006-08-29
amwaterhouse
jnetfile can be loaded onto alignment
tree
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commitdiff
2006-08-29
amwaterhouse
SequenceMapping updated
tree
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commitdiff
2006-08-29
amwaterhouse
Jnet files sent to servlet as annotations
tree
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commitdiff
2006-08-22
amwaterhouse
To uppercase only visible
tree
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commitdiff
2006-08-22
jprocter
getSequenceStrings() bug fixed.
tree
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commitdiff
2006-08-22
amwaterhouse
Remove group when hiding cols from scalePanel
tree
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commitdiff
2006-08-22
amwaterhouse
2006
tree
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commitdiff
2006-08-22
amwaterhouse
Put transparency back
tree
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commitdiff
2006-08-22
amwaterhouse
make 1.1 compatible
tree
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commitdiff
2006-08-22
jprocter
hidden region recovery in JPred and new hidden region...
tree
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commitdiff
2006-08-22
jprocter
off by one bug in hiden column unmarshalling
tree
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commitdiff
2006-08-21
amwaterhouse
header updated
tree
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commitdiff
2006-08-21
amwaterhouse
header updated
tree
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commitdiff
2006-08-21
amwaterhouse
validate groupPanel
tree
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commitdiff
2006-08-21
amwaterhouse
validate groupPanel
tree
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commitdiff
2006-08-21
amwaterhouse
Add uniprot DBref
tree
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commitdiff
2006-08-21
amwaterhouse
Remove system.out
tree
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commitdiff
2006-08-21
amwaterhouse
1.1 compatible
tree
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commitdiff
2006-08-21
jprocter
Refactored Jnet and added hidden columns support.
tree
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commitdiff
2006-08-21
jprocter
fixed undo-redo bug, hidden columns are moved with...
tree
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commitdiff
2006-08-21
jprocter
removeGaps method can record changes in alignment colum...
tree
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commitdiff
2006-08-21
jprocter
fix for truncation of sequence associated annotation...
tree
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commitdiff
2006-08-21
jprocter
added shiftList to record changes in alignment column...
tree
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commitdiff
2006-08-21
jprocter
remove gaps method from AlignFrame.remove_gaps_actionPe...
tree
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commitdiff
2006-08-21
jprocter
inverse ShiftList and SequenceI.gapMap->ShiftList methods.
tree
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commitdiff
2006-08-21
jprocter
avoid null pointer exceptions
tree
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commitdiff
2006-08-20
jprocter
javadoc
tree
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commitdiff
2006-08-18
amwaterhouse
Check colourScheme is not null - jalview prior 2.5...
tree
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commitdiff
2006-08-18
amwaterhouse
dont remove all representative seqs on delete groups
tree
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commitdiff
2006-08-18
amwaterhouse
remove all representative seqs on delete groups
tree
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commitdiff
2006-08-18
amwaterhouse
treeFile = treeFile
tree
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commitdiff
2006-08-18
amwaterhouse
Only discover DAS sources if panel shown
tree
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commitdiff
2006-08-18
amwaterhouse
only set new layout if 2 buttons visible
tree
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commitdiff
2006-08-18
amwaterhouse
Jalview features format adds links as hrefs
tree
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commitdiff
2006-08-17
amwaterhouse
H key updates
tree
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commitdiff
2006-08-17
amwaterhouse
OptionPane invokeLater
tree
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commitdiff
2006-08-17
amwaterhouse
If no annotation exists
tree
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commitdiff
2006-08-17
amwaterhouse
Set bg white
tree
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commitdiff
2006-08-17
amwaterhouse
Hold onto selected region when hiding all columns only
tree
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commitdiff
2006-08-17
jprocter
moved visible sub-alignment extraction and update from...
tree
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commitdiff
2006-08-17
jprocter
javadoc
tree
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commitdiff
2006-08-17
amwaterhouse
Monospace check
tree
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commitdiff
2006-08-17
amwaterhouse
1 more pixel allowed between chars and graph
tree
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commitdiff
2006-08-17
amwaterhouse
control and shift
tree
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commitdiff
2006-08-17
amwaterhouse
Dont set group null hideCOls
tree
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commitdiff
2006-08-17
amwaterhouse
OptionPanes invokeLater
tree
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commitdiff
2006-08-17
amwaterhouse
Control and alt for toggle hide
tree
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commitdiff
2006-08-16
amwaterhouse
Fire alignment changed if seqs hidden / revealed
tree
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commitdiff
2006-08-15
amwaterhouse
Correct title for sequence parameter applets
tree
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commitdiff
2006-08-15
amwaterhouse
Sequences can be added as parameter
tree
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commitdiff
2006-08-15
jprocter
make annotation label font size follow alignment font...
tree
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commitdiff
2006-08-15
jprocter
first stage of adapting JNet client to hidden regions...
tree
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commitdiff
2006-08-15
jprocter
fixed alignment ordering name.
tree
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commitdiff
2006-08-15
jprocter
ensure that close widget is available for jobs that...
tree
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commitdiff
2006-08-15
amwaterhouse
Acknowledgement
tree
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commitdiff
2006-08-15
amwaterhouse
Setselectiongroup null on hide
tree
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commitdiff
2006-08-15
amwaterhouse
H key to hide / reveal
tree
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commitdiff
2006-08-15
amwaterhouse
Add key listener to scalePanel and annotationPanel
tree
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commitdiff
2006-08-15
amwaterhouse
Select revealed seqs
tree
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commitdiff
2006-08-15
amwaterhouse
WRITEABLE_FORMATS and READABLE_FORMATS string []
tree
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commitdiff
2006-08-15
amwaterhouse
Move features to dataset
tree
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commitdiff
2006-08-14
amwaterhouse
Stockholm parser added
tree
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commitdiff
2006-08-14
amwaterhouse
Stockholm parser
tree
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commitdiff
2006-08-14
jprocter
refactored to create generic polling thread and subjobs
tree
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commitdiff
2006-08-14
jprocter
function to indicate job has finished but no results...
tree
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commitdiff
2006-08-14
amwaterhouse
new feature added
tree
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commitdiff
2006-08-14
amwaterhouse
Stop loading must be before JOptionPane, 1.5 bug
tree
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commitdiff
2006-08-14
amwaterhouse
No need to check selection group size
tree
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commitdiff
2006-08-14
amwaterhouse
findSequenceMatch returns multiple sequences
tree
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commitdiff
2006-08-14
amwaterhouse
Do a loop for multiple seq matches
tree
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commitdiff
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