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Merge branch 'develop' into develop_m2_8_1_2
[jalview.git]
/
src
/
jalview
/
bin
/
2009-07-24
jprocter
explicitly grab all permissions for application executi...
tree
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commitdiff
2009-06-19
jprocter
usepicr config property
tree
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commitdiff
2009-06-12
jprocter
retrieve and init vamsas session from vdoc at URL
tree
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commitdiff
2009-06-10
jprocter
com.boxysystems.jgogleanalytics is now an optional...
tree
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commitdiff
2009-06-08
jprocter
clargs documentation, new vamsas session import and...
tree
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commitdiff
2009-06-08
jprocter
ga tracker option and apply gpl development license
tree
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commitdiff
2009-06-08
jprocter
apply gpl development license
tree
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commitdiff
2009-06-01
jprocter
better decoupling of data loading routines for AJAX
tree
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commitdiff
2009-06-01
jprocter
first experiment with GA application use tracking
tree
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commitdiff
2009-04-04
jprocter
rejigged jmol check thread to run prior to data loading...
tree
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commitdiff
2009-04-04
jprocter
rejigged jmol check thread to run prior to data loading...
tree
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commitdiff
2009-03-17
jprocter
sortbytree/nosortbytree and defprop arguments. (defprop...
tree
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commitdiff
2009-03-17
jprocter
new sortbytree default config property
tree
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commitdiff
2009-02-06
jprocter
showunconserved preference
tree
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commitdiff
2008-12-04
jprocter
added local das sequence source CLI and documentation
tree
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commitdiff
2008-12-04
jprocter
allow sequence source to be specified as sequence:mydas...
tree
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commitdiff
2008-12-04
jprocter
local das source properties string constants and routin...
tree
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commitdiff
2008-09-08
jprocter
view settings in view submenu and user preferences...
tree
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commitdiff
2008-09-04
jprocter
merge from 2_4_Release branch
tree
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commitdiff
2008-08-12
jprocter
added nojmol parameter to disable check for jmol
tree
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commitdiff
2008-08-05
jprocter
showbutton default is true
tree
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commitdiff
2008-08-04
jprocter
added 'showbutton' applet parameter
tree
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commitdiff
2008-07-18
jprocter
prevent exception when no default timeout is specified
tree
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commitdiff
2008-06-30
jprocter
safer retrieval of groovy scripts from URLs
tree
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commitdiff
2008-05-26
jprocter
minor bugfix for case when PDB sequence strings are...
tree
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commitdiff
2008-04-29
jprocter
comments and version wget ping timeout fix for when...
tree
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commitdiff
2008-04-21
jprocter
added centre annotation labels menu entry (and commente...
tree
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commitdiff
2008-04-10
jprocter
bug fix for Features/Annotations file parameter parsing...
tree
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commitdiff
2008-02-22
jprocter
typo for AXISLOGLEVEL constant
tree
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commitdiff
2008-01-29
jprocter
groovy scripts can be read from stdin
tree
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commitdiff
2008-01-11
jprocter
added groovy argument for launching a groovy script...
tree
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commitdiff
2008-01-11
jprocter
memory monitor, garbage collection and changed menu...
tree
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commitdiff
2007-11-12
jprocter
javadoc and introduction of dasserver and fetchdas...
tree
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commitdiff
2007-11-12
jprocter
begun adding string constants for source properties
tree
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commitdiff
2007-10-27
jprocter
windowclose handler now calls EmbmenuFrame garbage...
tree
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commitdiff
2007-10-26
jprocter
fixed applet API calls so they operate on the embedded...
tree
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commitdiff
2007-10-12
jprocter
added separator parameter with default of '|' to contro...
tree
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commitdiff
2007-10-11
jprocter
remove conflict on javascript api
tree
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commitdiff
2007-10-11
jprocter
static debug flag controlling output of excessive info...
tree
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commitdiff
2007-10-10
jprocter
featureGroup show/hide and newView methods for applet...
tree
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commitdiff
2007-09-28
jprocter
javadoc for jalview_properties tags
tree
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commitdiff
2007-08-01
jprocter
added the '-tree' parameter to open a tree from the...
tree
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commitdiff
2007-07-30
jprocter
test cc change revoked.
tree
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commitdiff
2007-07-30
jprocter
test cc
tree
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commitdiff
2007-05-28
jprocter
loglevel property constants and castor validation logge...
tree
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commitdiff
2007-05-08
amwaterhouse
remove system.out
tree
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commitdiff
2007-05-04
amwaterhouse
New example file for version 2.3
tree
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commitdiff
2007-05-04
amwaterhouse
New example file for version 2.3
tree
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commitdiff
2007-05-01
amwaterhouse
remove system.out
tree
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commitdiff
2007-05-01
amwaterhouse
Can specify PDB chain to map sequence to - only used...
tree
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commitdiff
2007-04-27
amwaterhouse
Add param to Jmol path
tree
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commitdiff
2007-04-26
jprocter
groovy support without compile-time dependency.
tree
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commitdiff
2007-04-17
amwaterhouse
Applet remembers PDBEntries, can launch multiple struct...
tree
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commitdiff
2007-04-17
amwaterhouse
Add system.out for Mcview / Jmol detection
tree
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commitdiff
2007-03-27
amwaterhouse
Updated PDB loading params
tree
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commitdiff
2007-03-26
jprocter
grammar.
tree
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commitdiff
2007-02-27
amwaterhouse
Launch applet jmol
tree
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commitdiff
2007-02-07
amwaterhouse
Formatting
tree
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commitdiff
2007-02-06
jprocter
hardwired default user questionnaire url and by default...
tree
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commitdiff
2007-02-06
amwaterhouse
Applet params cant read tab character
tree
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commitdiff
2007-02-05
jprocter
command line hook for questionnaire url argument.
tree
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commitdiff
2007-02-05
amwaterhouse
applet can define groups as parameters
tree
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commitdiff
2007-02-02
amwaterhouse
LookandFeel must be set in headless state as window...
tree
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commitdiff
2007-02-01
amwaterhouse
removed deprecated bits
tree
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commitdiff
2007-01-25
amwaterhouse
load/get Annotation
tree
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commitdiff
2007-01-24
amwaterhouse
Features output for javascript
tree
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commitdiff
2007-01-19
amwaterhouse
Neeed to know protocol for annotation loading
tree
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commitdiff
2007-01-18
amwaterhouse
File Parsing returns Alignments, not Sequence[]
tree
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commitdiff
2006-12-19
amwaterhouse
org.vamsas is now uk.ac.vamsas
tree
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commitdiff
2006-11-22
amwaterhouse
frameListener must call close if AlignFrame
tree
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commitdiff
2006-11-20
amwaterhouse
currentAlignFrame is public
tree
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commitdiff
2006-11-06
amwaterhouse
Remember fileName in alignFrame
tree
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commitdiff
2006-11-02
amwaterhouse
Use system path separator char
tree
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commitdiff
2006-10-27
amwaterhouse
Rename old properties file before writing new
tree
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commitdiff
2006-10-09
jprocter
fixed log4j complaints for vamsas logging (again)
tree
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commitdiff
2006-10-09
jprocter
fixed log4j complaints for vamsas logging.
tree
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commitdiff
2006-10-09
jprocter
imported Vamsas bindings and alpha vamsas client code...
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
2006-08-21
amwaterhouse
header updated
tree
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commitdiff
2006-08-18
amwaterhouse
treeFile = treeFile
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
amwaterhouse
WRITEABLE_FORMATS and READABLE_FORMATS string []
tree
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commitdiff
2006-08-11
amwaterhouse
param tree replaces treeFile
tree
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commitdiff
2006-08-10
amwaterhouse
file: is a URL
tree
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commitdiff
2006-07-07
amwaterhouse
Colour argument added, to mirror applet view
tree
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commitdiff
2006-06-22
amwaterhouse
ParseFeaturesFile takes protocol as arg
tree
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commitdiff
2006-06-09
amwaterhouse
readAnnotationFile
tree
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commitdiff
2006-06-09
amwaterhouse
parseFeaturesFile
tree
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commitdiff
2006-06-07
amwaterhouse
Parameter to show feature settings
tree
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commitdiff
2006-05-17
jprocter
added the jnetfile parameter to specify a JNet concise...
tree
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commitdiff
2006-05-11
amwaterhouse
Recently loaded files, urls, append sequences to Alignment
tree
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commitdiff
2006-05-10
amwaterhouse
remove import
tree
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commitdiff
2006-05-01
amwaterhouse
Forces init of alignPanel if annotations added
tree
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commitdiff
2006-04-07
amwaterhouse
ModellerOutput set in preferences
tree
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commitdiff
2006-04-04
amwaterhouse
Add annoations from the command line
tree
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commitdiff
2006-04-04
amwaterhouse
Jalview2XML does not use static load
tree
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commitdiff
2006-03-16
amwaterhouse
Allow loading from Zip files
tree
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commitdiff
2006-03-08
amwaterhouse
IdentifyFile should not be static
tree
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commitdiff
2006-02-08
amwaterhouse
FormatAdapter throws exception
tree
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commitdiff
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