source.jalview.org Git - jabaws.git/log

pvtroshin [Tue, 17 May 2011 10:56:11 +0000 (10:56 +0000)]

New datamodel src v 1.1

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4134 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 28 Apr 2011 15:18:39 +0000 (15:18 +0000)]

revert build file changed excidentally

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4048 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 28 Apr 2011 15:17:21 +0000 (15:17 +0000)]

Add method to SequenceUtil to clean the protein sequence

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4047 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 28 Apr 2011 10:47:29 +0000 (10:47 +0000)]

FastaReader build into the datamodel

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4045 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 27 Apr 2011 23:39:38 +0000 (23:39 +0000)]

A wee improvement

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4044 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 27 Apr 2011 23:23:08 +0000 (23:23 +0000)]

A wee improvement

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4043 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 27 Apr 2011 23:22:08 +0000 (23:22 +0000)]

A wee improvement

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4042 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 27 Apr 2011 23:10:25 +0000 (23:10 +0000)]

New FastaReader implementing iterator & test case for it

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@4041 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 18 Apr 2011 15:11:54 +0000 (15:11 +0000)]

Add task to package sources for datamodel

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3968 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 18 Apr 2011 14:59:49 +0000 (14:59 +0000)]

Refactor:
relocate getLimit() method from Util client to Util engine as SkeletalExecutable (part of the engine depends on it)

Update compile ant task to get rid of warnings.
However, ant still does not complile due to cast issue. TODO later
Updating version of utils and datamodel as it includes the utils

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3967 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 8 Apr 2011 12:35:44 +0000 (12:35 +0000)]

Adding new website from r3934 JABA_r1 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3936 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 8 Apr 2011 12:34:01 +0000 (12:34 +0000)]

Remove old web site to replace with the new web site from JABA_r1 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3935 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 24 Mar 2011 16:37:04 +0000 (16:37 +0000)]

Doc update

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3855 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 16 Mar 2011 14:17:31 +0000 (14:17 +0000)]

Fix to JABAWS web.xml file to make it work with tomcat 7

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3829 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 10 Mar 2011 14:43:26 +0000 (14:43 +0000)]

statistics processor further work

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3818 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Mar 2011 18:55:05 +0000 (18:55 +0000)]

Add exec statistics processor & derby database

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3806 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Mar 2011 16:40:30 +0000 (16:40 +0000)]

Centralized statistic collector. All WS are converted to use the same input and output names
nano time changed to milliseconds time. Is not finished yet

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3789 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 14 Feb 2011 18:22:55 +0000 (18:22 +0000)]

Add limits for presets from jws2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3752 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 14 Feb 2011 18:19:14 +0000 (18:19 +0000)]

Change the way to deal with Limits to simplify wrapper writing and enable couping with null limits

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3751 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 14 Feb 2011 17:44:51 +0000 (17:44 +0000)]

commit | commitdiff | tree

pvtroshin [Thu, 10 Feb 2011 13:50:10 +0000 (13:50 +0000)]

Finally, the new web services are working

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3738 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 10 Feb 2011 12:05:04 +0000 (12:05 +0000)]

Fixes to test cases

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3734 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 10 Feb 2011 11:36:12 +0000 (11:36 +0000)]

Replace Map<String, HashSet<Score>> with ScoreManager and ScoreHolder classes to compensate for JAXB inability to serialize Maps. Propagate the changes

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3733 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Feb 2011 17:17:43 +0000 (17:17 +0000)]

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pvtroshin [Wed, 9 Feb 2011 15:49:35 +0000 (15:49 +0000)]

new services are registered in wsbuild

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3728 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Feb 2011 14:51:20 +0000 (14:51 +0000)]

DisEMBL and GlobProt web services further work

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3727 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Feb 2011 11:10:23 +0000 (11:10 +0000)]

Fix a test case for jronn parameters

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3724 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Feb 2011 11:04:49 +0000 (11:04 +0000)]

Disable jronn parameter

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3723 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 9 Feb 2011 10:42:39 +0000 (10:42 +0000)]

GlobPlot and DIsembl execs all test passed

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3722 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 8 Feb 2011 17:27:02 +0000 (17:27 +0000)]

Copying Bio-python to globplot to satisfy the dependency

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3719 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 8 Feb 2011 17:21:44 +0000 (17:21 +0000)]

Further work on GlobPlot

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3718 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 7 Feb 2011 15:10:30 +0000 (15:10 +0000)]

Add globplot and disembl to web services descriptors

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3710 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 7 Feb 2011 15:06:27 +0000 (15:06 +0000)]

GlobPlot service, runner and result parser
Some rearrangements for disembl to reuse methods

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3709 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 4 Feb 2011 17:18:08 +0000 (17:18 +0000)]

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3705 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 4 Feb 2011 17:15:33 +0000 (17:15 +0000)]

Disembl and Jronn web services work. Modified to produce raw scores Globplot script is added into binaries. Annotation IF renamed to SequenceAnnotation and getAnnotation() method returns Map<String, Set<Score>> result instead of Set<Score> to unify. Changes cause by this is propagated.

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3704 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 17:17:42 +0000 (17:17 +0000)]

Parser for DisEMBL results and finished runner, few test cases. DisemblTester has all tests "green"

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3695 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 17:06:01 +0000 (17:06 +0000)]

Add py script to executable too

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3694 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 16:59:07 +0000 (16:59 +0000)]

got rid of all disembl parameters as they were pointless to change dues to the fact that underlaying executable refuses to accept values or they have no impact

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3693 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 14:09:00 +0000 (14:09 +0000)]

add disembl limits

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3688 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 14:08:42 +0000 (14:08 +0000)]

Change disembl paths to project internal

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3687 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 14:07:26 +0000 (14:07 +0000)]

add disembl source compilation

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3686 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 13:16:41 +0000 (13:16 +0000)]

Adding DisEMBL dependency Tisean executable

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3667 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 12:19:53 +0000 (12:19 +0000)]

Disembl binaries and its dependancies e.g. minimized BioPython distribution and sovgol executable

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3666 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 3 Feb 2011 10:13:15 +0000 (10:13 +0000)]

Disembl further implementation

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3663 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 2 Feb 2011 16:53:10 +0000 (16:53 +0000)]

Adding Jronn WS to conf files

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3661 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 2 Feb 2011 16:30:22 +0000 (16:30 +0000)]

Remove Annotated and MuptiAnnotated Sequence use Score instead

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3660 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 26 Jan 2011 13:17:56 +0000 (13:17 +0000)]

Replacing web site content with fresh version from JWS2 (JABAWS production ) branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3640 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 26 Jan 2011 13:14:19 +0000 (13:14 +0000)]

Remove web site to encorporate JWS2 changes

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3639 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 7 Jan 2011 14:14:40 +0000 (14:14 +0000)]

Make muscle executable compilation not static to fix problem on Macs
Remove one more digit from the head of non repeatable number to prevent it going beyond long on Mac VMs

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3585 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 23 Dec 2010 16:31:53 +0000 (16:31 +0000)]

Style issues are resolved - the copy from JABA production release

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3576 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 23 Dec 2010 16:22:56 +0000 (16:22 +0000)]

rename aacon task and resulting file

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3574 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 23 Dec 2010 14:29:57 +0000 (14:29 +0000)]

Moving a method from AACon to SequenceUtil

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3567 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 23 Dec 2010 12:28:47 +0000 (12:28 +0000)]

AAConWS separate client to be removed later

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3565 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 21 Dec 2010 18:34:21 +0000 (18:34 +0000)]

Adding updated javadoc

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3556 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 21 Dec 2010 18:28:57 +0000 (18:28 +0000)]

Write javadoc for new datamodel classes , remove some incomplete staff

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3555 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 21 Dec 2010 18:13:36 +0000 (18:13 +0000)]

remove javadoc to update

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3554 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 21 Dec 2010 15:02:12 +0000 (15:02 +0000)]

AAConWS further work

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3550 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 20 Dec 2010 13:56:37 +0000 (13:56 +0000)]

Further work on AAConWS

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3534 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 16 Dec 2010 11:30:06 +0000 (11:30 +0000)]

Gramma improved

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3501 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 9 Dec 2010 12:02:15 +0000 (12:02 +0000)]

More javadocs

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3458 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 9 Dec 2010 11:42:55 +0000 (11:42 +0000)]

remove old javadoc to replace with new

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3457 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 3 Dec 2010 19:03:59 +0000 (19:03 +0000)]

Refactored client class to accomodate new WS interface and reduce the complexity

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3428 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 3 Dec 2010 16:19:10 +0000 (16:19 +0000)]

Preset limits for AACon

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3425 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 3 Dec 2010 16:12:13 +0000 (16:12 +0000)]

AAConWS further work and test cases

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3424 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 2 Dec 2010 18:16:47 +0000 (18:16 +0000)]

Better name for AACon WS test

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3417 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 2 Dec 2010 16:56:31 +0000 (16:56 +0000)]

AAConWS is working

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3416 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 29 Nov 2010 22:06:31 +0000 (22:06 +0000)]

AAConWS further work

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3407 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 29 Nov 2010 22:05:57 +0000 (22:05 +0000)]

AAConWS further work

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3406 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 15:08:11 +0000 (15:08 +0000)]

Get rid of unnecessary duplication of config files.

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3392 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 14:27:11 +0000 (14:27 +0000)]

Changes from JWS2 branch concerning local execution and logging

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3389 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 14:25:26 +0000 (14:25 +0000)]

Add LoadBalancer and Limit testers from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3388 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 14:24:04 +0000 (14:24 +0000)]

Tests for AACon loader

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3387 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:13:11 +0000 (13:13 +0000)]

Dundee specific settings from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3385 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:12:35 +0000 (13:12 +0000)]

Dundee specific settings from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3384 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:07:42 +0000 (13:07 +0000)]

More work on AAConWS not finished yet!

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3383 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:04:56 +0000 (13:04 +0000)]

update from JWS2

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3382 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:03:38 +0000 (13:03 +0000)]

add images from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3381 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:02:54 +0000 (13:02 +0000)]

remove old images

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3380 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 13:00:10 +0000 (13:00 +0000)]

Add updated javadoc from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3379 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 12:59:05 +0000 (12:59 +0000)]

remove old javadoc

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3378 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 12:48:49 +0000 (12:48 +0000)]

Adding changes from JWS2 branch. Fixes for Limit in particular

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3377 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 24 Nov 2010 12:43:52 +0000 (12:43 +0000)]

More work on AAConWS not finished yet!

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3376 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 22 Nov 2010 15:38:01 +0000 (15:38 +0000)]

Java doc and package infos from JWS" branch. Also rethink of MSAWS interface in light of new web services e.g. AACon web service.

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3345 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 22 Nov 2010 15:29:47 +0000 (15:29 +0000)]

Changes from JWS2 branch merged, mostly javadoc

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3344 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 22 Nov 2010 15:09:13 +0000 (15:09 +0000)]

Adding AAConWS

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3343 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 19 Nov 2010 16:02:09 +0000 (16:02 +0000)]

Add updated web site from JWS2 branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3338 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 19 Nov 2010 15:50:01 +0000 (15:50 +0000)]

Remove old versions of web site

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@3337 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 19 Aug 2010 14:52:02 +0000 (14:52 +0000)]

updates to jaba2 from jaba release branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2922 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 19 Aug 2010 14:43:32 +0000 (14:43 +0000)]

updates to jaba2 from jaba release branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2921 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 19 Aug 2010 14:36:46 +0000 (14:36 +0000)]

updates to jaba2 from jaba release branch

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2919 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 19 Aug 2010 10:25:41 +0000 (10:25 +0000)]

Fixed version of Preset class from JABA_r1 branch (see bug JWS-19)

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2907 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Mon, 26 Jul 2010 18:23:44 +0000 (18:23 +0000)]

Adding disembl wrapper

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2685 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Fri, 23 Jul 2010 13:15:01 +0000 (13:15 +0000)]

Jronn multi core support

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2666 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 22 Jul 2010 13:17:08 +0000 (13:17 +0000)]

Set number of thread for execution

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2652 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 22 Jul 2010 12:59:22 +0000 (12:59 +0000)]

Some refactoring

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2651 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 22 Jul 2010 12:22:47 +0000 (12:22 +0000)]

getStatistics test method fixed

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2650 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Thu, 22 Jul 2010 11:13:08 +0000 (11:13 +0000)]

Jronn tester

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2648 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 21 Jul 2010 16:56:53 +0000 (16:56 +0000)]

Add local engine properties back to version control

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2646 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Wed, 21 Jul 2010 16:27:56 +0000 (16:27 +0000)]

Add JRonn runner, tester, methods to parse jronn output files.

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2638 e3abac25-378b-4346-85de-24260fe3988d

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pvtroshin [Tue, 20 Jul 2010 12:51:03 +0000 (12:51 +0000)]

Fix copyright header

git-svn-id: link to svn.lifesci.dundee.ac.uk/svn/barton/ptroshin/JABA2@2612 e3abac25-378b-4346-85de-24260fe3988d