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

jprocter [Tue, 24 Apr 2007 15:54:37 +0000 (15:54 +0000)]

updated to castor-1.1 + Vamsas Specific hashCode modification

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@373 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:27:01 +0000 (14:27 +0000)]

update detection mechanism based comparing the difference between the position of start and end tags of a Vobject between successive document unmarshallings.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@372 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:27:00 +0000 (14:27 +0000)]

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:19:41 +0000 (14:19 +0000)]

pass maintained hash of Vobject hash values to IdFactory so it can detect modified objects.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@370 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:17:55 +0000 (14:17 +0000)]

commented out methods that might be used for accessing a list of updated objects stored in the vamsas session

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@369 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:16:49 +0000 (14:16 +0000)]

javadoc

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@368 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 20 Mar 2007 14:16:33 +0000 (14:16 +0000)]

new constructor to pass hash of Vobject hash values to unmarshalling mechanism for comparison with document objects.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@367 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Mon, 19 Mar 2007 13:26:04 +0000 (13:26 +0000)]

trap exceptions during session events and ensure pick messages are blocked whilst document changed events occur

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@366 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Mon, 19 Mar 2007 13:24:26 +0000 (13:24 +0000)]

debug log output

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@365 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 15:25:25 +0000 (15:25 +0000)]

switched picker shutdown to after finalize() call - simulating GUI shutdown after Vamsas session shutdown.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@364 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:54:56 +0000 (14:54 +0000)]

WatcherElement reference should be nulled by caller of removeClient rather than within method.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@363 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:50:42 +0000 (14:50 +0000)]

interrupt before wait sleep so haltWatchers is more likely to return after watchThread has stopped.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@362 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:48:20 +0000 (14:48 +0000)]

Messages are thrown away when passThru is false (rather than receiver thread sleeping). Better shutdown behaviour (thread references are nulled)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@361 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:45:29 +0000 (14:45 +0000)]

closing channel always releases lock (on windows anyhow)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@360 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:44:03 +0000 (14:44 +0000)]

occasional null pointer exception

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@359 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:43:39 +0000 (14:43 +0000)]

ensured backups are only made when backup==true

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@358 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 15 Mar 2007 14:16:08 +0000 (14:16 +0000)]

removed infinite loop on server shutdown

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@357 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 14:19:16 +0000 (14:19 +0000)]

more debug messages.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@356 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 14:18:23 +0000 (14:18 +0000)]

simplified and bugfixed occasional lock contention.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@355 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 14:17:10 +0000 (14:17 +0000)]

bugfixes for shutdown and null message reception.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@354 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 14:07:22 +0000 (14:07 +0000)]

utility functions for dealing with Range and Properties elements.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@353 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 13:14:55 +0000 (13:14 +0000)]

remove unnecessary existence checks.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@352 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 8 Mar 2007 13:14:30 +0000 (13:14 +0000)]

remove unnecessary existence checks.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@351 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Wed, 7 Mar 2007 11:09:07 +0000 (11:09 +0000)]

Added shutdown() methods for the socket-based PickManager code.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@350 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 6 Mar 2007 12:57:09 +0000 (12:57 +0000)]

stub for the dom tree update event generator.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@349 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 6 Mar 2007 12:56:31 +0000 (12:56 +0000)]

added PickManager test code. Current state of library means this example app fails to shutdown after three instances have been started.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@348 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 6 Mar 2007 12:55:46 +0000 (12:55 +0000)]

synchronized methods to ensure thread safety for underlying SimplePickManager code. (not successful yet!)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@347 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Tue, 27 Feb 2007 22:19:12 +0000 (22:19 +0000)]

ensured single instance of vamsasarchive io handler to prevent lock contention.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@346 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Mon, 12 Feb 2007 14:33:21 +0000 (14:33 +0000)]

non-1.4 factory construtors removed.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@345 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 2 Feb 2007 17:45:52 +0000 (17:45 +0000)]

Added generateClientUrn method to generate a urn from client name and version. Ensures that the client urn is generated, when one of the attribute is modified. And, add support for null attribute in the equals method

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@344 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 2 Feb 2007 17:39:51 +0000 (17:39 +0000)]

Avoid creation of ClientHandle and UserHandle objects with null attributes. Otherwise, problem with null pointer exception.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@343 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:54:01 +0000 (15:54 +0000)]

log config (with SESSIONLOG config too).
Need to separate SESSIONLOG in future.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@342 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:51:15 +0000 (15:51 +0000)]

SimpleClient implementation testable against uk.ac.vamsas.test.ExampleApplication

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@341 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:47:39 +0000 (15:47 +0000)]

fixed bug leaving copies of archive backups (no testcase for this)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@340 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:46:10 +0000 (15:46 +0000)]

extended to test against SimpleClient implementation

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@339 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:42:39 +0000 (15:42 +0000)]

added TODO for testing getAppData method before migration to simpleClient.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@338 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:39:22 +0000 (15:39 +0000)]

untested watcherElement for spotting changes in SessionFlagFile presence/absence.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@337 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:38:15 +0000 (15:38 +0000)]

formal polling thread for particular FileWatcher types (VamsasFile or SessionFile style)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@336 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:35:44 +0000 (15:35 +0000)]

method to get File object being watched

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@335 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:34:27 +0000 (15:34 +0000)]

fixed subtle bug in closeChannel behaviour on lock release and debug logging.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@334 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:26:43 +0000 (15:26 +0000)]

wrapper for conditionally passing picks onto the client application

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@333 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 15:26:11 +0000 (15:26 +0000)]

added (broken) haltPickManager methods

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@332 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 12 Jan 2007 13:29:45 +0000 (13:29 +0000)]

refactoring org->uk.ac

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@331 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 5 Jan 2007 19:01:15 +0000 (19:01 +0000)]

VamsasSession: Fixed VamsasSession init/construction if the session directory exists and do not contains session files.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@330 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 4 Jan 2007 15:45:53 +0000 (15:45 +0000)]

when closing session, closes each associated VAMAV clients

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@329 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 17:32:41 +0000 (17:32 +0000)]

more refactoring fallout

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@328 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 16:13:25 +0000 (16:13 +0000)]

Updated simple client sessionURN to use URI instead of URL to generate SessionURN (URI) from the session directory path (file location or vamsas session).
Updated SimpleClient to match modified constructor (MalformedURL not throw anymore)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@327 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:58:04 +0000 (15:58 +0000)]

SessionURN fix asFile method now create the File object from the URI

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@326 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:47:37 +0000 (15:47 +0000)]

Added TestSessionURN: to test the creation of a sessionURN and to retrieve a correct file from it.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@325 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:46:51 +0000 (15:46 +0000)]

SessionUrn: modified to scope with windows (space ... in file name. Use URI instead of URL

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@324 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 15:09:28 +0000 (15:09 +0000)]

Modified CustomMessage.java so that tabs are used to separate message elements rather than underscores.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@323 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 15:08:57 +0000 (15:08 +0000)]

Modified MouseOverMessage.java so that tabs are used to separate message elements rather than underscores.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@322 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:07:30 +0000 (15:07 +0000)]

SessionHandle: added equals method to compare SessionHandles, based on the sessionUrn

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@321 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:06:25 +0000 (15:06 +0000)]

amsasSession: added addClient and removeClient to add and remove a client to/from the session client list.
Attached (as attribute) a SessionManager

Removes the currentSession of the active session list, if the client to removed is the last one of the list

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@320 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:03:10 +0000 (15:03 +0000)]

Moves sessionFile management to SimpleSessionManager calling SessionsFile class (dealing directly with the file)

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@319 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 15:01:43 +0000 (15:01 +0000)]

SimpleClient: remove client of the session client list when closing/finalizing (finalizeClient method)
added get_session() to retrieve current vamsas session

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@318 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 13:53:29 +0000 (13:53 +0000)]

Added comment about handling messages in the GUI event thread.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@317 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 13:49:52 +0000 (13:49 +0000)]

Added getter methods to the MouseOverMessage class.
Added code to MouseOverMessage.java so it can reconstruct the message object from the raw data stream.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@316 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 12:05:06 +0000 (12:05 +0000)]

internal flags for added and updated since last read for Vobjects tested with ArchiveClient code.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@315 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 11:52:41 +0000 (11:52 +0000)]

Checked in the document update handler interface and a concrete implementation of it (that contains empty methods).

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@314 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Fri, 15 Dec 2006 11:27:30 +0000 (11:27 +0000)]

Commented out all logging messages from the pick code to speed up message transfer.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@313 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 11:12:32 +0000 (11:12 +0000)]

added a getter for the pickhandler interface in IClient

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@312 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 11:10:55 +0000 (11:10 +0000)]

added usage notes about removing specific object bindings

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@311 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 11:07:07 +0000 (11:07 +0000)]

extracted from the jalview.io.VamsasDatastore bindjv2obj and associated methods.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@310 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Fri, 15 Dec 2006 09:24:24 +0000 (09:24 +0000)]

SessionUrn: added a constructor to build a SessionURN from a String

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@309 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Fri, 15 Dec 2006 09:04:32 +0000 (09:04 +0000)]

javadoc not updated for refactored packages.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@308 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 21:18:21 +0000 (21:18 +0000)]

created setURN to generated sessionUrn from a urn as String. Allow to be replaced by an inheriting class

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@307 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 21:15:09 +0000 (21:15 +0000)]

SessionHandle: made SessionHandle serializable to be able to store it into file

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@306 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 21:14:12 +0000 (21:14 +0000)]

SessionHandle: made SessionHandle serializable to be able to store it into file

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@305 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 21:13:31 +0000 (21:13 +0000)]

VamsasSession Fix session constructor/initialisation if the session directory already exists

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@304 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 21:13:03 +0000 (21:13 +0000)]

SimpleClientFactory Added support to create a IClient for a given Session to a given session URN

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@303 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

imilne [Thu, 14 Dec 2006 19:29:20 +0000 (19:29 +0000)]

Picking API now has message classes and basic implementation of interfaces (for its own implementation and client-app message handling implementation).

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@302 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

pmarguerite [Thu, 14 Dec 2006 19:21:21 +0000 (19:21 +0000)]

Fix session constructor/initialisation if the session directory already exists

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@301 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 19:07:00 +0000 (19:07 +0000)]

changed vamsasDocument and vamsas types namespaces.

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@300 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:58:50 +0000 (18:58 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@299 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:58:27 +0000 (18:58 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@298 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:57:20 +0000 (18:57 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@297 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:52:17 +0000 (18:52 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@296 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:51:35 +0000 (18:51 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@295 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:50:31 +0000 (18:50 +0000)]

refactoring org to uk - never use f**ng eclipse

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@294 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:49:23 +0000 (18:49 +0000)]

refactoring org to uk - never use f**ng eclipse

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@293 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:49:07 +0000 (18:49 +0000)]

refactoring org to uk - never use f**ng eclipse

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@292 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:48:08 +0000 (18:48 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@291 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:47:51 +0000 (18:47 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@290 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:47:18 +0000 (18:47 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@289 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:43:00 +0000 (18:43 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@288 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:42:43 +0000 (18:42 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@287 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:41:20 +0000 (18:41 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@286 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:40:16 +0000 (18:40 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@285 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:39:48 +0000 (18:39 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@284 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:27:53 +0000 (18:27 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@283 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:27:16 +0000 (18:27 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@282 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:26:15 +0000 (18:26 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@281 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:20:51 +0000 (18:20 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@280 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:18:43 +0000 (18:18 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@279 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:18:26 +0000 (18:18 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@278 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:17:24 +0000 (18:17 +0000)]

refactoring org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@277 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:16:54 +0000 (18:16 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@276 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:16:15 +0000 (18:16 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@275 be28352e-c001-0410-b1a7-c7978e42abec

commit | commitdiff | tree

jprocter [Thu, 14 Dec 2006 18:16:14 +0000 (18:16 +0000)]

refactored org to uk

git-svn-id: https://svn.lifesci.dundee.ac.uk/svn/repository/trunk@274 be28352e-c001-0410-b1a7-c7978e42abec