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command line hook for questionnaire url argument.
2006-08-09
jprocter
refactored hidden regions methods and made an AlignmentView...
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2006-08-09
jprocter
fixed multiple shifts bug.
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2006-08-08
jprocter
removed extraneous classes.
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2006-08-08
jprocter
locally modified biojava-dasobert package is now org...
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2006-08-07
jprocter
added commented out seqStrings comment.
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2006-08-04
jprocter
recover original data for tree and pca as alignment...
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2006-07-26
jprocter
accidental commit of a build
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2006-07-26
jprocter
Ignore list created
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2006-07-26
jprocter
Cigars for representing alignment view as used for...
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2006-07-26
jprocter
CigarBase class and derivatives.
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2006-07-26
jprocter
Implemented CIGAR representation of an Alignment view...
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2006-07-26
jprocter
Compact Idiosyncratic Gapped Alignment Representation...
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2006-07-24
jprocter
partly finished pods.
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2006-07-21
jprocter
Item added to ignoreList
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2006-07-21
jprocter
Item added to ignoreList
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2006-07-21
jprocter
Ignore list created
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2006-07-20
jprocter
annotation label font size change in applet.
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2006-07-18
jprocter
use of GapChars
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2006-06-08
jprocter
Introduced DbRefEntry to DasSourceCoordinateSystem...
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2006-06-08
jprocter
DBRefEntry.source enum type
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2006-06-08
jprocter
bugfixed and podded.
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2006-06-08
jprocter
simplest conversion of gff to jalview annotation format...
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2006-06-07
jprocter
broken link typo. (SEVENtwentyfour alert)
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2006-05-18
jprocter
added future method comment
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2006-05-17
jprocter
added the jnetfile parameter to specify a JNet concise...
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2006-05-17
jprocter
added unofficial support for concise output parsing...
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2006-05-17
jprocter
refactored code for creating JNet annotations
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2006-05-17
jprocter
Refactored code for creating annotation objects from...
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2006-05-16
jprocter
added popup warning when proxy settings must be configured.
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2006-05-12
jprocter
rearranged discoverer to dynamically update on demand
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2006-04-10
jprocter
load features/annotations typo.
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2006-04-10
jprocter
added note about cursor mode disabling the popup menu.
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2006-04-10
jprocter
typo and explanation for ignore gaps in consensus
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2006-04-10
jprocter
reworded pad gaps
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2006-04-10
jprocter
reworded pad gaps.
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2006-04-10
jprocter
put modellerpir in correct place!
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2006-04-10
jprocter
updated menus and rearranged seqfeatures (again)
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2006-04-10
jprocter
fix links to complex html (that don't display) by quoting...
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2006-04-10
jprocter
moved Modeller/PIR description to its own home.
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2006-04-10
jprocter
moved modellerpir to io
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2006-04-10
jprocter
describing the Modeller/PIR output.
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2006-04-10
jprocter
Fixed table border and updated restrictions
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2006-04-10
jprocter
added bit about modeller/pir
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2006-04-10
jprocter
added annotationColouring to whats new and updated...
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2006-04-10
jprocter
extended preamble and added new heading for user defined...
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2006-04-10
jprocter
doco
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2006-04-10
jprocter
doco changes.
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2006-04-10
jprocter
added 2.08 application version dialog box.
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2006-04-10
jprocter
feature settings dialog box for jalview 2.08 application
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2006-04-09
jprocter
doco writing.
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2006-04-07
jprocter
added full keyset for cursorMode
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2006-04-06
jprocter
added cursorMode feature page and rearranged keystrokes...
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2006-04-06
jprocter
removed dross, added a safety check to buildextclients...
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2006-03-20
jprocter
added example jnlp to memory settings help
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2006-03-20
jprocter
added link to example jnlp file
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2006-03-20
jprocter
example jnlp file for users to edit and save locally
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2006-03-17
jprocter
jnet method description correction.
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2006-03-16
jprocter
added description of alignment quality scores and separated
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2006-03-14
jprocter
methods for searching DBRef lists
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2006-03-13
jprocter
fixes bug 0013013 but reveals lack of a 'features retrieved...
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2006-03-13
jprocter
bug fix for 0013013
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2006-03-01
jprocter
fixed after refactoring of SequenceFeature[] seq.getSequence...
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2006-03-01
jprocter
propagate SearchResult object use to MCView's highlighted...
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2006-01-12
jprocter
PIR file IO now preserves and parses Modeller style...
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2006-01-12
jprocter
DBRefEntry made for sequences retrieved from the PDB
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2006-01-12
jprocter
<No Comment Entered>
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2006-01-12
jprocter
ensured properties are loaded before loggers are initialised.
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2006-01-11
jprocter
refactored Alignframe padGaps code to Alignment and...
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2005-12-16
jprocter
Todo notes for feature issue: 0011711
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2005-12-09
jprocter
added description of how PDB structures can be associated...
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2005-12-09
jprocter
Rearranged 'What's new' and debugged/verified the sequence...
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2005-12-09
jprocter
fixed pdbentry creation and multiple uniprot or pdb...
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2005-12-08
jprocter
context dependent title for when called from desktop...
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2005-12-08
jprocter
changed WhatsNew to a folder and modified preferences...
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2005-12-08
jprocter
added some error checking and instruction dialogs
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2005-12-08
jprocter
modified jnet parsing exception report string.
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2005-12-08
jprocter
exception checks for (de)uniquify
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2005-11-18
jprocter
Fixed bug http://dragonfly.compbio.dundee.ac.uk/mantis...
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2005-11-18
jprocter
added 3 letter IUB codes for ambiguous residues/bases
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2005-09-15
jprocter
Fixed so job submission and job failure errors are...
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2005-09-05
jprocter
More informative error messages.
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2005-08-25
jprocter
html typo
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2005-08-25
jprocter
more informative clustal colourscheme doco.
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2005-08-22
jprocter
jalview-dev doesn't exist.
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2005-08-22
jprocter
regenerated stubs from wsdl and removed old vamsas...
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2005-08-22
jprocter
regenerated from wsdl.
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2005-08-22
jprocter
Replaced by jpred.java and associated stubs.
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2005-08-22
jprocter
fixed hanging on job finished bug.
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2005-08-22
jprocter
tidied client and fixed non-unique msa bug (lead to...
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2005-08-22
jprocter
fixed uniquify seq[]
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2005-08-22
jprocter
regenerated Jpred stubs and tidied client thread.
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2005-08-22
jprocter
comment on WORD_SEP values
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2005-08-18
jprocter
made changes to DEFAULT_BROWSER in user preferences...
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2005-08-18
jprocter
changed first clicked to nearest the top of the alignment.
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2005-08-18
jprocter
typo
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2005-08-18
jprocter
moved to clustalw.html
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2005-08-18
jprocter
typo fixes.
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2005-08-18
jprocter
error checking, sanitization and properties support.
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2005-08-18
jprocter
GUI typo
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2005-08-18
jprocter
typo - Muscle->JNet
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