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removed old VARNA library
[jalview.git]
/
src
/
2011-01-12
jprocter
1.1 compat
tree
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commitdiff
2011-01-12
jprocter
javascript callback for selection, mousover, and functi...
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commitdiff
2011-01-12
jprocter
selection should be sent after refresh happens
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commitdiff
2011-01-12
jprocter
javadoc
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commitdiff
2011-01-12
jprocter
java side javascript callback enactors JAL-469
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commitdiff
2011-01-10
jprocter
patch for JAL-740
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commitdiff
2011-01-07
jprocter
refactored dropFile allowing known information to be...
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commitdiff
2011-01-07
jprocter
bulk associate pdb files dropped on to alignment :...
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commitdiff
2011-01-07
jprocter
refactored guts of pdb file association code
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commitdiff
2011-01-07
jprocter
check for all http protocols
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commitdiff
2011-01-07
jprocter
refactored to use SequenceI
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commitdiff
2011-01-06
jprocter
JAL-730
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commitdiff
2011-01-05
jprocter
more robust calculation of partition from possibly...
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commitdiff
2011-01-05
jprocter
inline submission of alignment with correct crlf
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commitdiff
2011-01-05
jprocter
ensure group props are recalculated before alignment...
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commitdiff
2011-01-05
jprocter
revised shmr service
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commitdiff
2011-01-05
jprocter
todo and ensure old annotation/groups are removed befor...
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commitdiff
2011-01-05
jprocter
todo
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commitdiff
2011-01-05
jprocter
exception reporting for bad URLs
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commitdiff
2011-01-05
jprocter
JAL-727
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commitdiff
2011-01-05
jprocter
JAL-727
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commitdiff
2011-01-05
jprocter
propagated groups trimmed to correct region on viscontig
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commitdiff
2011-01-05
jprocter
graphThreshold not being copied by constructor
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commitdiff
2010-12-17
jprocter
first publicly accessible test of JAL-724
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commitdiff
2010-12-17
jprocter
JAL-715 and JAL-724
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commitdiff
2010-12-17
jprocter
JAL-715
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commitdiff
2010-12-17
jprocter
refined modification test
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commitdiff
2010-12-17
jprocter
refactored gap insert/visible view modification code...
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commitdiff
2010-12-17
jprocter
adjust start and end of intersecting group relative...
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commitdiff
2010-12-17
jprocter
1.1 compat
tree
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commitdiff
2010-12-17
jprocter
1.1 compat
tree
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commitdiff
2010-12-17
jprocter
refactored gap insert/visible view modification code...
tree
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commitdiff
2010-12-17
jprocter
javadoc
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commitdiff
2010-12-15
jprocter
incremental refinement of results parsing
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commitdiff
2010-12-15
jprocter
allow client to check if the original alignment data...
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commitdiff
2010-12-15
jprocter
javadoc
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commitdiff
2010-12-15
jprocter
update modification state flag according to parsing...
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commitdiff
2010-12-15
jprocter
getters and modification state flag
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commitdiff
2010-12-15
jprocter
more accurate determination of annotation modification
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commitdiff
2010-12-15
jprocter
refactored key calc for hash to separate function
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commitdiff
2010-12-14
jprocter
1.1 compat
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commitdiff
2010-12-14
jprocter
1.1 compat
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commitdiff
2010-12-14
jprocter
more fixes and extension to allow return data types...
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commitdiff
2010-12-14
jprocter
render of html job logs and link opening JAL-720
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commitdiff
2010-12-14
jprocter
more efficient set/append
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commitdiff
2010-12-14
jprocter
method to recover sources from packed stream
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commitdiff
2010-12-14
jprocter
always provide reference to hashtable so feature settin...
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commitdiff
2010-12-14
jprocter
JAL-725 - show progress when opening URL in browser
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commitdiff
2010-12-14
jprocter
JAL-724
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commitdiff
2010-12-14
jprocter
refactored and patched for JAL-721
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commitdiff
2010-12-14
jprocter
refactored and patched for JAL-721
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commitdiff
2010-12-10
jprocter
mime types and handler
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commitdiff
2010-12-10
jprocter
javadoc
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commitdiff
2010-12-10
jprocter
remove implicit non-1.1 compatible call
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commitdiff
2010-12-09
jprocter
fix case when groups overlap - ensure groups are non...
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commitdiff
2010-12-09
jprocter
java 1.1 patches
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commitdiff
2010-12-09
jprocter
java 1.1 patches
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commitdiff
2010-12-09
jprocter
initial implementation of Rest client framework (JAL...
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commitdiff
2010-12-09
jprocter
dataIn.ready() is not a test of data source validity!
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commitdiff
2010-12-09
jprocter
initial list of mime-type bindings to jalview data...
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commitdiff
2010-12-09
jprocter
initial implementation for JAL-718
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commitdiff
2010-12-09
jprocter
refactored and added methods for getting richer Alignme...
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commitdiff
2010-12-09
jprocter
new methods and test code for JAL-716
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commitdiff
2010-12-09
jprocter
new constructor and refactored methods for intersecting...
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commitdiff
2010-12-09
jprocter
new methods for testing for/storing selection/group...
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commitdiff
2010-12-09
jprocter
javadoc and additional convenience method for JAL-716
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commitdiff
2010-12-02
jprocter
refactored visible contig/gap map array intersection...
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commitdiff
2010-11-14
jprocter
refactored to decouple dependencies due to FileParse...
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commitdiff
2010-11-14
jprocter
refactored protocol check to jalview.io.FileParse
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commitdiff
2010-11-14
jprocter
import annotation file from datasource
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commitdiff
2010-11-14
jprocter
refactored protocol parser and allow human readable...
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commitdiff
2010-11-14
jprocter
zero length operations are valid
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commitdiff
2010-11-14
jprocter
flag indicating if results should be associated immediately
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commitdiff
2010-11-14
jprocter
node rename for deuniquifying trees from web service...
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commitdiff
2010-11-12
jprocter
patch for JAL-682 - copy over current display settings...
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commitdiff
2010-11-12
jprocter
patch for JAL-699 so conservation/consensus threads...
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commitdiff
2010-11-12
jprocter
patch for JAL-700
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commitdiff
2010-11-12
jprocter
revised logic to avoid NPE
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commitdiff
2010-11-11
jprocter
improved logic for distinguishing amino acids and nucle...
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commitdiff
2010-11-11
jprocter
potential non-threadsafe condition
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commitdiff
2010-11-11
jprocter
patch for JAL-655
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commitdiff
2010-11-04
jprocter
prevented URLs appearing in both the 'bad ' and the...
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commitdiff
2010-11-04
jprocter
made ws warning dialog optional, and fixed its wording...
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commitdiff
2010-11-04
jprocter
report any problematic web service URLs ( JAL-343 )
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commitdiff
2010-11-04
jprocter
remove name of progress bar when stopping ws refresh...
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commitdiff
2010-10-29
jprocter
refactored so public interfaces take instances of WsPar...
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commitdiff
2010-10-29
jprocter
parallelised service endpoint discovery and ensured...
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commitdiff
2010-10-20
jprocter
more explicit menu entry text (JAL-675)
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commitdiff
2010-10-20
jprocter
resolve some layout problems : JAL-685
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commitdiff
2010-10-12
jprocter
patch primary issue causing JAL-664 re testing for...
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commitdiff
2010-10-12
jprocter
patch for secondary issue in JAL-664 re parsing empty...
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commitdiff
2010-09-23
jprocter
remove overrides
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commitdiff
2010-09-23
jprocter
NPE race condition alert - see JAL-661
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commitdiff
2010-09-23
jprocter
revised author list
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commitdiff
2010-09-23
jprocter
apply jalview code style
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commitdiff
2010-09-23
jprocter
Jalview 2.6 source licence
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commitdiff
2010-09-22
jprocter
Fix and documentation for JAL-657
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commitdiff
2010-09-22
jprocter
jmol update
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commitdiff
2010-09-22
jprocter
jabaws, not jws2
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commitdiff
2010-09-22
jprocter
trap out of memory errors specifically associated with...
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commitdiff
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