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progress bars (still need to be threaded properly) and URI drag'n'dropping
[jalview.git]
/
src
/
2008-08-06
jprocter
extra checks for datasetsequence for when getDbRefs...
tree
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commitdiff
2008-08-06
jprocter
getDBRefs now always returns DBRefArray if it exists...
tree
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commitdiff
2008-08-05
jprocter
new vamsas session does not open a dialog box
tree
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commitdiff
2008-08-05
jprocter
ensure das sequence sources are refreshed when das...
tree
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commitdiff
2008-08-05
jprocter
showbutton default is true
tree
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commitdiff
2008-08-04
jprocter
stackoverflow fix
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commitdiff
2008-08-04
jprocter
pfam seed and full alignment retrieval and nicer orderi...
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commitdiff
2008-08-04
jprocter
added 'showbutton' applet parameter
tree
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commitdiff
2008-08-01
jprocter
new SequenceFetcher gui and visual delay indication...
tree
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commitdiff
2008-08-01
jprocter
updated jalview version of dasobert 1.53e client and...
tree
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commitdiff
2008-08-01
jprocter
todo
tree
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commitdiff
2008-08-01
jprocter
interface for windows that display progress bars
tree
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commitdiff
2008-07-31
jprocter
use canonical DbSource name in GUI box, and ensure...
tree
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commitdiff
2008-07-31
jprocter
refactored method for registering instance of a dbSourc...
tree
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commitdiff
2008-07-31
jprocter
quick fix for the new uniprot name schema - description...
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commitdiff
2008-07-31
jprocter
added specific retrieval arguments to SequneceFetcher...
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commitdiff
2008-07-18
jprocter
resolve 1:many mappings for sequence associated annotat...
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commitdiff
2008-07-18
jprocter
resolve 1:many mappings from feature sequence ID to...
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commitdiff
2008-07-18
jprocter
allow findSeq to begin *after* a given sequence in...
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commitdiff
2008-07-18
jprocter
Sequence label colour stored for each sequence group
tree
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commitdiff
2008-07-18
jprocter
comment
tree
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commitdiff
2008-07-18
jprocter
annotation file format updated to take idColour and...
tree
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commitdiff
2008-07-18
jprocter
Sequence label colour stored for each sequence group
tree
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commitdiff
2008-07-18
jprocter
User defined colourschemes are automatically generated...
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commitdiff
2008-07-18
jprocter
prevent exception when no default timeout is specified
tree
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commitdiff
2008-07-11
jprocter
ensure annotationElements in non-graphical annotation...
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commitdiff
2008-06-30
jprocter
javadoc and constraint to ensure annotation labels...
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commitdiff
2008-06-30
jprocter
java 1.1 compatibility
tree
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commitdiff
2008-06-30
jprocter
timing of 'on load' output before any gui thread operations
tree
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commitdiff
2008-06-30
jprocter
safer retrieval of groovy scripts from URLs
tree
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commitdiff
2008-06-30
jprocter
included includeGaps flag in clustalW colour calculatio...
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commitdiff
2008-06-26
jprocter
added URLEncoder.encode to properly escape CGI encoded...
tree
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commitdiff
2008-06-23
jprocter
local sequence properties are preserved in SeqCigar...
tree
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commitdiff
2008-05-26
jprocter
Uniprot is not actually a multi-acc capable source...
tree
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commitdiff
2008-05-26
jprocter
bugfix so MULTI_ACC capable sources value property...
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commitdiff
2008-05-26
jprocter
minor bugfix for case when PDB sequence strings are...
tree
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commitdiff
2008-05-12
jprocter
fixed Jalview project archive bug where alignment view...
tree
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commitdiff
2008-05-02
jprocter
bugfix to avoid null pointer exceptions being raised...
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commitdiff
2008-05-01
jprocter
fix for unicode char labels causing arrayOutOfBoundsExc...
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commitdiff
2008-04-29
jprocter
comments and version wget ping timeout fix for when...
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commitdiff
2008-04-29
jprocter
added SeqSearch service interface. Documented and refac...
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commitdiff
2008-04-29
jprocter
trial fix for parsing NHX style trees to extract the...
tree
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commitdiff
2008-04-25
jprocter
potential fix for hang on opening of application window...
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commitdiff
2008-04-21
jprocter
documented and refactored to facilitate headless featur...
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commitdiff
2008-04-21
jprocter
added centre annotation labels menu entry (and commente...
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commitdiff
2008-04-21
jprocter
centrecolumnlabels format menu item and parameter added...
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commitdiff
2008-04-21
jprocter
castor debug option cleared
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commitdiff
2008-04-17
jprocter
bugfix for refactoring (webservice windows wouldn't...
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commitdiff
2008-04-17
jprocter
javadoc and refactor of setWebService method to allow...
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commitdiff
2008-04-17
jprocter
todo for refactoring webservice GUI creation mechanism
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commitdiff
2008-04-17
jprocter
javadoc for webservice client tutorial
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commitdiff
2008-04-17
jprocter
todos
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commitdiff
2008-04-17
jprocter
javadoc and quiet flag
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commitdiff
2008-04-11
jprocter
fix JPred thread so job aborts if submission fails.
tree
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commitdiff
2008-04-10
jprocter
quick fix for conservation calculation when residue...
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commitdiff
2008-04-10
jprocter
bug fix for Features/Annotations file parameter parsing...
tree
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commitdiff
2008-03-08
jprocter
first hack to get true DNA and Sequence highlighting...
tree
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commitdiff
2008-02-24
jprocter
sequenceId is a string, not an integer - allows generat...
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commitdiff
2008-02-24
jprocter
sequenceId is a string, not an integer - allows generat...
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commitdiff
2008-02-22
jprocter
sequenceId is a string, not an integer - allows generat...
tree
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commitdiff
2008-02-22
jprocter
valid format for writing test
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commitdiff
2008-02-22
jprocter
probably unnecessary optimisation (SequenceGroup.addSeq...
tree
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commitdiff
2008-02-22
jprocter
On 'save' menu entry check to see if fileformat is...
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commitdiff
2008-02-22
jprocter
CDS segment index
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commitdiff
2008-02-22
jprocter
possible fix for stockhom ss-annotation re-creation...
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commitdiff
2008-02-22
jprocter
index number for contiguous part of mapped sequence...
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commitdiff
2008-02-22
jprocter
javadoc
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commitdiff
2008-02-22
jprocter
typo for AXISLOGLEVEL constant
tree
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commitdiff
2008-02-22
jprocter
explicit quote of chaincode in errror message
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commitdiff
2008-01-29
jprocter
minor change to output of main method for testing file IO
tree
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commitdiff
2008-01-29
jprocter
memory usage information and flag to indicate if warnin...
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commitdiff
2008-01-29
jprocter
add methods to read from current position of existing...
tree
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commitdiff
2008-01-29
jprocter
ensure mark is set before identification is started.
tree
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commitdiff
2008-01-29
jprocter
FileParse object can be re-used to read different files...
tree
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commitdiff
2008-01-29
jprocter
flag to indicate if errors are raised as warning dialog...
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commitdiff
2008-01-29
jprocter
explicitly allow access to showMemoryUsage flag in...
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commitdiff
2008-01-29
jprocter
javadoc
tree
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commitdiff
2008-01-29
jprocter
groovy scripts can be read from stdin
tree
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commitdiff
2008-01-29
jprocter
reinstated proper case insensitive searching for both...
tree
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commitdiff
2008-01-22
jprocter
timings and memory usage for reading in a file
tree
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commitdiff
2008-01-22
jprocter
more efficient parsing of large files, do not create...
tree
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commitdiff
2008-01-22
jprocter
ensured that seqeunce feature shift takes into account...
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commitdiff
2008-01-22
jprocter
new method to get map of sequence positions correspondi...
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commitdiff
2008-01-21
jprocter
fix regex for annotation subtype to use non-whitespace...
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commitdiff
2008-01-21
jprocter
javadoc and main method for testing file input routines
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commitdiff
2008-01-21
jprocter
javadoc
tree
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commitdiff
2008-01-11
jprocter
added groovy argument for launching a groovy script...
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commitdiff
2008-01-11
jprocter
memory monitor, garbage collection and changed menu...
tree
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commitdiff
2007-12-21
jprocter
uniprotxml format comment (ebi changed service parameter)
tree
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commitdiff
2007-12-21
jprocter
further bugfix and annotation transfer for dna/protein...
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commitdiff
2007-12-21
jprocter
javadoc and bugfix
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commitdiff
2007-12-21
jprocter
sequence db fetcher and db reference validation/annotat...
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commitdiff
2007-12-21
jprocter
sequence db fetcher metadata for multiple sequence...
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commitdiff
2007-12-21
jprocter
temporary bugfix ?
tree
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commitdiff
2007-12-21
jprocter
bugfix
tree
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commitdiff
2007-12-21
jprocter
equivalence for transferring/updating references
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commitdiff
2007-12-21
jprocter
bugfixes
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commitdiff
2007-12-18
jprocter
incorrect colour-by-sequence when gaps are present...
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commitdiff
2007-12-13
jprocter
java 1.1 compatibility (again)
tree
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commitdiff
2007-12-13
jprocter
java 1.1 compatibility (again)
tree
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commitdiff
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