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hardwired default user questionnaire url and by default will always check for a quest...
2007-02-06
jprocter
hardwired default user questionnaire url and by default...
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2007-02-06
jprocter
more bugfixes.
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2007-02-06
jprocter
debug log message
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2007-02-05
jprocter
simplified and refactored along with cgi-script.
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2007-02-05
jprocter
command line hook for questionnaire url argument.
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2007-02-05
jprocter
kkv change
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2007-02-05
jprocter
client side machinery for user questionnaire responses
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2007-01-26
jprocter
preliminary documentation for DNA->protein codon features...
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2007-01-26
jprocter
added doc for PDBResNum features
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2007-01-25
jprocter
reinstating class implementation.
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2007-01-25
jprocter
checks for irreflexive mapping in main tester
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2007-01-24
jprocter
refactored to use jalview.analysis.Finder for searching...
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2007-01-24
jprocter
kkv change
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2007-01-24
jprocter
Map arbitrary series of non-overlapping integer intervals...
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2007-01-23
jprocter
refactoring (added seqIndex/resIndex state for incremental...
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2007-01-23
jprocter
refactored search algorithm from gui classes
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2007-01-23
jprocter
transfer resnum features now returns features (could...
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2007-01-19
jprocter
reoganization of PDB sequence fetching for sequence...
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2007-01-19
jprocter
PDBChain maintains reference to dataset of sequences...
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2007-01-19
jprocter
datasetSequence derive method and some checks
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2007-01-19
jprocter
javadoc
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2007-01-19
jprocter
added sequence feature copy constructor.
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2007-01-18
jprocter
transfer and update of sequenceFeatures for associated...
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2007-01-18
jprocter
random ';'
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2007-01-18
jprocter
transfer and update of sequenceFeatures for associated...
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2007-01-18
jprocter
fixed last-residue bug and added sequence feature creation...
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2007-01-18
jprocter
added resNum+insCode string field for truly unambiguous...
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2007-01-17
jprocter
made atom attributes public (rather than put in get...
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2006-12-21
jprocter
type change
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2006-12-21
jprocter
description from vamsas sequence and file type change
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2006-12-21
jprocter
type change
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2006-12-11
jprocter
fixed introduced bug (doh)
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2006-12-11
jprocter
clarified help documentation for annotation file format...
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2006-12-06
jprocter
type change
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2006-12-06
jprocter
typo fix.
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2006-12-06
jprocter
general pairwise substitution score models for pairwise...
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2006-12-04
jprocter
random notes on putting a Groovy interpreter into Jalview.
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2006-11-30
jprocter
fix bad grammar in new alignment title
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2006-11-28
jprocter
EBI web service interface update (and SequenceFetcher...
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2006-11-28
jprocter
2.2 documentation
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2006-11-28
jprocter
2.2 documentation
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2006-11-28
jprocter
2.2 documentation
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2006-11-28
jprocter
2.2 documentation
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2006-11-27
jprocter
2.2 documentation
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2006-11-27
jprocter
2.2 documentation
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2006-11-27
jprocter
2.2 documentation
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2006-11-27
jprocter
*** keyword substitution change ***
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2006-11-27
jprocter
2.2 documentation
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2006-11-27
jprocter
2.2 documentation
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2006-11-26
jprocter
2.2 documentation
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2006-11-24
jprocter
new and corrected docs for 2.2 release
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2006-11-21
jprocter
corrected subtree colour dialogbox title
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2006-11-21
jprocter
fix unselectable tree leaf nodes when node mapping...
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2006-10-24
jprocter
fixes bug reported by Christopher Tan (help@jalview...
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2006-10-15
jprocter
fixed array out of bounds exception in copy constructor
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2006-10-11
jprocter
fixes exception (array index out of bounds - due to...
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2006-10-10
jprocter
refined id matching to pick the closest match (by length...
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2006-10-10
jprocter
debug message bugfix on duplicate tree leaf names.
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2006-10-10
jprocter
bugfix for dodgy trees which contain the same leafname...
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2006-10-09
jprocter
fixed log4j complaints for vamsas logging (again)
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2006-10-09
jprocter
fixed log4j complaints for vamsas logging.
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2006-10-09
jprocter
excluded log4j properties.
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2006-10-09
jprocter
java 1.4 compliant classes.
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2006-10-09
jprocter
imported Vamsas bindings and alpha vamsas client code...
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2006-10-09
jprocter
set firstColumn property for an alignmentView object.
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2006-10-09
jprocter
fixed getCompactAlignment method to return proper cigarArray...
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2006-10-06
jprocter
Added filter so that input to a JPred job is *solely...
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2006-10-06
jprocter
javadoc
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2006-10-06
jprocter
new getVisibleContigs method mirrors the getVisibleContigs...
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2006-09-27
jprocter
fixed tree building exception when one residue or a...
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2006-09-07
jprocter
added copy consensus sequence to consensus annotation...
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2006-09-05
jprocter
getVisibleContigs() returns start and end positions...
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2006-09-05
jprocter
javadoc on contigs
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2006-08-22
jprocter
documentation - adding new Input data menu entries.
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2006-08-22
jprocter
added note on column-separability
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2006-08-22
jprocter
documentation
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2006-08-22
jprocter
getSequenceStrings() bug fixed.
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2006-08-22
jprocter
hidden region recovery in JPred and new hidden region...
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2006-08-22
jprocter
off by one bug in hiden column unmarshalling
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2006-08-21
jprocter
Refactored Jnet and added hidden columns support.
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2006-08-21
jprocter
fixed undo-redo bug, hidden columns are moved with...
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2006-08-21
jprocter
removeGaps method can record changes in alignment columns...
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2006-08-21
jprocter
fix for truncation of sequence associated annotation...
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2006-08-21
jprocter
added shiftList to record changes in alignment column...
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2006-08-21
jprocter
remove gaps method from AlignFrame.remove_gaps_actionPerformed
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2006-08-21
jprocter
inverse ShiftList and SequenceI.gapMap->ShiftList methods.
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2006-08-21
jprocter
avoid null pointer exceptions
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2006-08-20
jprocter
javadoc
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2006-08-17
jprocter
moved visible sub-alignment extraction and update from...
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2006-08-17
jprocter
javadoc
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2006-08-15
jprocter
make annotation label font size follow alignment font...
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2006-08-15
jprocter
first stage of adapting JNet client to hidden regions...
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2006-08-15
jprocter
fixed alignment ordering name.
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2006-08-15
jprocter
ensure that close widget is available for jobs that...
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2006-08-14
jprocter
refactored to create generic polling thread and subjobs
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2006-08-14
jprocter
function to indicate job has finished but no results...
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2006-08-14
jprocter
multiple subjobs can be cancelled and gui only allows...
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2006-08-14
jprocter
fixed off by one bug in end sequence from getSubSequence...
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2006-08-14
jprocter
end<start for empty sequences in Sequence[] from SeqCigar[]
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2006-08-14
jprocter
fixing residue clip bug in MsaWSThread and adding minimum...
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