Timeline



Oct 5, 2007:

3:36 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3807]) References #721: Most things for attaching files to rw …
3:36 PM Changeset [3807] by Nicklas Nordborg
References #721: Most things for attaching files to rw bioassays are …
1:12 PM Changeset [3806] by Jari Häkkinen
Fixed typo.

Oct 4, 2007:

4:33 PM Changeset [3805] by Martin Svensson
References #492 Added a basic support for includes in queries and …
4:33 PM Ticket #492 (Web services) updated by Martin Svensson
(In [3805]) References #492 Added a basic support for includes in …
2:25 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3804]) References #721: Most things for attaching files to array …
2:25 PM Changeset [3804] by Nicklas Nordborg
References #721: Most things for attaching files to array designs are …

Oct 3, 2007:

4:33 PM Ticket #492 (Web services) updated by Martin Svensson
(In [3803]) References #492 Updated Axis2 from 1.1 to 1.3
4:33 PM Changeset [3803] by Martin Svensson
References #492 Updated Axis2 from 1.1 to 1.3
4:29 PM Ticket #492 (Web services) updated by Martin Svensson
Status, Owner changed
1:58 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3802]) References #721: File validation is now in place. More …
1:58 PM Changeset [3802] by Nicklas Nordborg
References #721: File validation is now in place. More robust code for …
8:46 AM Ticket #794 (Long query may cause session to timeout) created by Nicklas Nordborg
If a client application executes a query that takes a long time …

Oct 2, 2007:

7:28 PM Ticket #492 (Web services) updated by Nicklas Nordborg
Description changed
5:05 PM Ticket #492 (Web services) updated by Jari Häkkinen
Description changed
9:12 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3801]) References #721: It is now possible to select files for an …
9:12 AM Changeset [3801] by Nicklas Nordborg
References #721: It is now possible to select files for an array design

Oct 1, 2007:

8:02 AM Ticket #793 (Job agent get logged out when waiting for a job to finish) created by Nicklas Nordborg
If a job takes longer time to execute than the setting in …

Sep 28, 2007:

8:11 PM Ticket #792 (Add support for units to annotation values) created by Nicklas Nordborg
See …
3:16 PM Ticket #791 (Plug-in execution time estimates) created by Jari Häkkinen
Plug-ins should be better in estimating the expected execution time. …
3:14 PM Ticket #790 (Job slot status information on job agent view) created by Jari Häkkinen
It would be nice to see the jobs slot utilization in the job agent …
1:58 PM Ticket #789 (Extend "Experiment overview" to check for problems related to platform ...) created by Nicklas Nordborg
Depends on #721 and #788. The experiment overview should check: * …
1:54 PM Ticket #788 (Select project default platforms / variant) created by Nicklas Nordborg
Depends on #721. The list of items selected as project default items …
1:47 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3800]) References #721: It is now possible to edit platforms and …
1:47 PM Changeset [3800] by Nicklas Nordborg
References #721: It is now possible to edit platforms and data file …
9:50 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3799]) References #721: Added platform variants to web gui.
9:50 AM Changeset [3799] by Nicklas Nordborg
References #721: Added platform variants to web gui.
8:45 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3798]) References #721: Changed systemId to externalId in JSP as well
8:45 AM Changeset [3798] by Nicklas Nordborg
References #721: Changed systemId to externalId in JSP as well
8:35 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3797]) References #721: Changes systemId to externalId
8:35 AM Changeset [3797] by Nicklas Nordborg
References #721: Changes systemId to externalId

Sep 27, 2007:

10:05 PM Changeset [3796] by Nicklas Nordborg
Merged log:trunk#3775:3995 into filedb branch
9:52 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3795]) References #721: Updated documentation to reflect changes …
9:52 PM Changeset [3795] by Nicklas Nordborg
References #721: Updated documentation to reflect changes in the code …
9:47 PM Ticket #524 (Read "Overview of user documentation" section) updated by Nicklas Nordborg
(In [3794]) References #524. Fixed some issues in the text, and a …
9:47 PM Changeset [3794] by Nicklas Nordborg
References #524. Fixed some issues in the text, and a build problem on …
1:38 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3793]) References #721: Many core classes in place. Work has …
1:38 PM Changeset [3793] by Nicklas Nordborg
References #721: Many core classes in place. Work has started on the …
12:57 PM Ticket #787 (Add functions for within Bioassays and across Bioassayset in expressions) created by Johan Vallon-Christersson
It would be useful to have the possibility to use some standard …
9:58 AM Ticket #560 (Deleting reporters) closed by Martin Svensson
fixed: (In [3792]) Fixes #560 Deleting reporters
9:58 AM Changeset [3792] by Martin Svensson
Fixes #560 Deleting reporters

Sep 26, 2007:

1:57 PM Ticket #560 (Deleting reporters) updated by Martin Svensson
Owner, Status changed
1:37 PM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
Summary changed
1:33 PM Ticket #665 (Links in the documentation) closed by Martin Svensson
fixed: (In [3791]) Fixes #665 Links in the documentation
1:33 PM Changeset [3791] by Martin Svensson
Fixes #665 Links in the documentation
1:20 PM Ticket #665 (Links in the documentation) updated by Martin Svensson
The misuse of links in the documentation is not fixed with this …
11:27 AM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
Summary, Priority, Owner, Status changed
11:24 AM Changeset [3790] by Martin Svensson
References #524 Some small changes to finish the writing.
11:24 AM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
(In [3790]) References #524 Some small changes to finish the writing.
10:54 AM Changeset [3789] by Johan Enell
Merged the 2.4.3 release log:branches/2.4-stable#3771:3788
8:47 AM Ticket #665 (Links in the documentation) updated by Martin Svensson
The first issue is occurring when a link-tag is used instead of …
7:35 AM Ticket #665 (Links in the documentation) updated by Martin Svensson
Owner, Status changed
12:14 AM DownloadPage edited by Jari Häkkinen
Releasing 2.4.3 (diff)
12:04 AM Changeset [3788] by Jari Häkkinen
Changes for future release 2.4.4
12:02 AM Changeset [3787] by Jari Häkkinen
Tagging release 2.4.3
12:02 AM Milestone BASE 2.4.3 completed
Revision Log: log:branches/2.4-stable@3772:3786

Sep 25, 2007:

11:56 PM Changeset [3786] by Jari Häkkinen
Preparing release 2.4.3
4:56 PM Changeset [3785] by Johan Enell
creates the new BioAssay set the same way in the assays and spots section
3:08 PM Ticket #655 (Plugins -> defintions fails with 'illegal attempt to dereference ...) closed by Nicklas Nordborg
fixed: (In [3784]) Fixes #655: Plugins -> defintions fails with 'illegal …
3:08 PM Changeset [3784] by Nicklas Nordborg
Fixes #655: Plugins -> defintions fails with 'illegal attempt to …
2:30 PM Changeset [3783] by Nicklas Nordborg
Merged changes from trunk between revisions 3758:3775 Minor changes in …
2:28 PM Changeset [3782] by Martin Svensson
References #524 Mostly done, will read it one more time and correct …
2:28 PM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
(In [3782]) References #524 Mostly done, will read it one more time …
1:47 PM Changeset [3781] by Nicklas Nordborg
Fixes #780: ParameterValuesImpl doesn't implement ParameterValues as …
1:47 PM Ticket #780 (ParameterValuesImpl doesn't implement ParameterValues as specified) closed by Nicklas Nordborg
fixed: (In [3781]) Fixes #780: ParameterValuesImpl doesn't implement …
1:21 PM Ticket #780 (ParameterValuesImpl doesn't implement ParameterValues as specified) updated by Nicklas Nordborg
Owner, Status changed
1:20 PM Changeset [3780] by Nicklas Nordborg
Fixes #784: PackedFileExporter chews first character from file and …
1:20 PM Ticket #784 (PackedFileExporter chews first character from file and directory names ...) closed by Nicklas Nordborg
fixed: (In [3780]) Fixes #784: PackedFileExporter chews first character from …
1:09 PM Ticket #784 (PackedFileExporter chews first character from file and directory names ...) updated by Nicklas Nordborg
Status, Owner changed
12:35 PM Ticket #775 (Refresh redirects) updated by Nicklas Nordborg
It has to do with which tab that was visible at first, but it may not …
12:17 PM Changeset [3779] by Nicklas Nordborg
Fixes #776: ParameterType.validate should include parameter name in …
12:17 PM Ticket #776 (ParameterType.validate should include parameter name in error messages) closed by Nicklas Nordborg
fixed: (In [3779]) Fixes #776: ParameterType.validate should include …
12:11 PM Ticket #786 (Path constructor doesn't validate the filename part of the path) closed by Nicklas Nordborg
fixed: (In [3778]) Fixes #786: Path constructor doesn't validate the filename …
12:11 PM Changeset [3778] by Nicklas Nordborg
Fixes #786: Path constructor doesn't validate the filename part of the path
12:03 PM Ticket #786 (Path constructor doesn't validate the filename part of the path) created by Nicklas Nordborg
It happily accepts a path like: /dir/abc<>def Creating a File item …
11:56 AM Ticket #775 (Refresh redirects) updated by Johan Enell
The first visible tab was the properties tab. It works when I switch …
11:35 AM Ticket #785 (ItemContext.configureQuery() should use fetch join if a non-selected ...) closed by Nicklas Nordborg
fixed: (In [3777]) Fixes #785: ItemContext.configureQuery() should use fetch …
11:35 AM Changeset [3777] by Nicklas Nordborg
Fixes #785: ItemContext.configureQuery() should use fetch join if a …
11:33 AM Ticket #783 (Check the source for other places affected by the Postgres problem ...) closed by Nicklas Nordborg
fixed: Can't find any more places. The problem found is now part of ticket #785.
11:32 AM Ticket #785 (ItemContext.configureQuery() should use fetch join if a non-selected ...) created by Nicklas Nordborg
Some databases, ie. Postgres, requires that a column in the ORDER BY …
11:28 AM Changeset [3776] by Nicklas Nordborg
Fixes #781: AnnotationSet.getAllInheritedAnnotations() may generate …
11:28 AM Ticket #781 (AnnotationSet.getAllInheritedAnnotations() may generate invalid query ...) closed by Nicklas Nordborg
fixed: (In [3776]) Fixes #781: AnnotationSet.getAllInheritedAnnotations() may …
11:12 AM Changeset [3775] by Johan Enell
Merged the 2.4.2 release log:branches/2.4-stable#3694:3770
9:58 AM Ticket #783 (Check the source for other places affected by the Postgres problem ...) updated by Nicklas Nordborg
I have found that BioMaterialEvent.getQuery() also creates a DISTINCT …
9:35 AM Ticket #782 (Create test case that calls AnnotationSet.getAllInheritedAnnotations()) closed by Nicklas Nordborg
fixed: (In [3774]) Fixes #782: Create test case that calls …
9:35 AM Changeset [3774] by Nicklas Nordborg
Fixes #782: Create test case that calls …
9:34 AM Ticket #783 (Check the source for other places affected by the Postgres problem ...) updated by Nicklas Nordborg
Status, Owner changed
9:34 AM Ticket #782 (Create test case that calls AnnotationSet.getAllInheritedAnnotations()) updated by Nicklas Nordborg
Status, Owner changed
9:16 AM Ticket #781 (AnnotationSet.getAllInheritedAnnotations() may generate invalid query ...) updated by Nicklas Nordborg
I have just verified that option 2 with a fetch join seems to work. It …
9:07 AM Ticket #781 (AnnotationSet.getAllInheritedAnnotations() may generate invalid query ...) updated by Nicklas Nordborg
Status, Owner changed
7:55 AM Ticket #784 (PackedFileExporter chews first character from file and directory names ...) updated by Nicklas Nordborg
Milestone changed
7:55 AM Ticket #776 (ParameterType.validate should include parameter name in error messages) updated by Nicklas Nordborg
Milestone changed
7:54 AM Ticket #780 (ParameterValuesImpl doesn't implement ParameterValues as specified) updated by Nicklas Nordborg
Milestone changed
7:54 AM Ticket #783 (Check the source for other places affected by the Postgres problem ...) updated by Nicklas Nordborg
Milestone, Priority changed
7:53 AM Ticket #782 (Create test case that calls AnnotationSet.getAllInheritedAnnotations()) updated by Nicklas Nordborg
Milestone changed
7:53 AM Ticket #781 (AnnotationSet.getAllInheritedAnnotations() may generate invalid query ...) updated by Nicklas Nordborg
Milestone changed
1:02 AM WikiStart edited by Jari Häkkinen
Fixed broken link. (diff)
12:13 AM Changeset [3773] by Jari Häkkinen
Merged patch release 2.4.2 to the webservices bracnh. Delta 2.4.2 - 2.4.1

Sep 24, 2007:

11:09 PM DownloadPage edited by Jari Häkkinen
Releasing 2.4.2 (diff)
11:01 PM Changeset [3772] by Jari Häkkinen
Changes for future release 2.4.3
10:51 PM Changeset [3771] by Jari Häkkinen
Tagging release 2.4.2
10:51 PM Milestone BASE 2.4.2 completed
Revision Log: log:branches/2.4-stable@3723:3770
10:45 PM Changeset [3770] by Jari Häkkinen
Preparing release 2.4.2
10:42 PM Ticket #784 (PackedFileExporter chews first character from file and directory names ...) created by Nicklas Nordborg
If trying to download files and directories that are located in the …
10:33 PM Ticket #783 (Check the source for other places affected by the Postgres problem ...) updated by Nicklas Nordborg
Description changed
10:33 PM Ticket #783 (Check the source for other places affected by the Postgres problem ...) updated by Nicklas Nordborg
Description changed
10:33 PM Ticket #783 (Check the source for other places affected by the Postgres problem ...) created by Nicklas Nordborg
Since it only affects distinct queries we can use Eclipse to find all …
10:31 PM Ticket #782 (Create test case that calls AnnotationSet.getAllInheritedAnnotations()) created by Nicklas Nordborg
See #781 for details about why such a test is needed.
10:26 PM Ticket #781 (AnnotationSet.getAllInheritedAnnotations() may generate invalid query ...) created by Nicklas Nordborg
On the /common/annotations/list_annotations.jsp the …
6:32 PM Ticket #777 (Take me back to the start) updated by Nicklas Nordborg
I found a bug in the core which results in this user-unfriendly …
6:30 PM Ticket #780 (ParameterValuesImpl doesn't implement ParameterValues as specified) created by Nicklas Nordborg
The ParameterValuesImpl.setValue() and setValues() method doesn't …
5:20 PM Ticket #779 (Improve validation of job parameters in Base1PluginExecuter) created by Johan Enell
The job parameters in the Base1PluginExecuter should be validated at …
5:04 PM Ticket #776 (ParameterType.validate should include parameter name in error messages) updated by Nicklas Nordborg
Component, Priority, Summary changed
It is the responsibility of the plug-in to validate the parameters and …
4:55 PM Ticket #776 (ParameterType.validate should include parameter name in error messages) updated by Nicklas Nordborg
Milestone changed
4:54 PM Ticket #778 (Add expression to formula) updated by Nicklas Nordborg
Milestone changed
4:53 PM Ticket #775 (Refresh redirects) updated by Nicklas Nordborg
Milestone changed
4:53 PM Ticket #777 (Take me back to the start) closed by Nicklas Nordborg
invalid: It is the responsibility of the plug-in to validate the parameters and …
4:49 PM Ticket #778 (Add expression to formula) created by Johan Enell
When creating an expression to a formula using the the Expression …
4:34 PM Ticket #777 (Take me back to the start) created by Johan Enell
If I have made en error when adding values to the plugin job …
4:25 PM Ticket #775 (Refresh redirects) updated by Johan Enell
Milestone changed
4:25 PM Ticket #776 (ParameterType.validate should include parameter name in error messages) created by Johan Enell
The exception message shown when you have entered wrong values in the …
3:58 PM Changeset [3769] by Martin Svensson
Fixes #770 Filter plug-in is lacking permission to read reporter lists
3:58 PM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) closed by Martin Svensson
fixed: (In [3769]) Fixes #770 Filter plug-in is lacking permission to read …
3:40 PM Ticket #775 (Refresh redirects) updated by Nicklas Nordborg
I don't there is an easy solution for this and the same "problem" is …
3:11 PM Ticket #775 (Refresh redirects) created by Johan Enell
From the experiment analyse page. I press 'Overview plots' and watch …
2:40 PM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Martin Svensson
Owner, Status changed
2:39 PM Ticket #774 (Export selected items doesn't work in TableExporter) closed by Martin Svensson
fixed: (In [3768]) Fixes #774 Export selected items doesn't work in TableExporter
2:39 PM Changeset [3768] by Martin Svensson
Fixes #774 Export selected items doesn't work in TableExporter
2:39 PM Ticket #774 (Export selected items doesn't work in TableExporter) created by Martin Svensson
The export of selected items from a table only gives a nullpointer …
1:31 PM Ticket #772 (Exporting features from Array designs) closed by Martin Svensson
fixed: (In [3767]) Fixes #772 Exporting features from Array designs
1:31 PM Changeset [3767] by Martin Svensson
Fixes #772 Exporting features from Array designs
10:58 AM Ticket #772 (Exporting features from Array designs) updated by Martin Svensson
Owner, Status changed

Sep 21, 2007:

4:35 PM Changeset [3766] by Martin Svensson
Reference #524 A start
3:41 PM Changeset [3765] by Martin Svensson
References #364, Correct inconsistent variable/property 'plugin.dir' …
3:41 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3765]) References #364, Correct inconsistent variable/property …
2:51 PM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3764]) References #721. Added data layer classes and some core …
2:51 PM Changeset [3764] by Nicklas Nordborg
References #721. Added data layer classes and some core classes.
2:44 PM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) reopened by Johan Vallon-Christersson
To display the experimental factors in a similar way as in the …
2:35 PM Changeset [3763] by Martin Svensson
References #364, Added instructions how to make ant put …
2:35 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3763]) References #364, Added instructions how to make ant put …
1:34 PM Ticket #772 (Exporting features from Array designs) updated by Nicklas Nordborg
Milestone, Component changed
It is probably a bug.
1:19 PM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Nicklas Nordborg
Inherited annotations can't be viewed in the list views, only …
12:38 PM Ticket #769 (Trying to configure AnnotationTypeCvImporter.jar) updated by base
yes that was the problem. Sorry! Bad typo.
10:47 AM Ticket #773 (Filter reporter table using array design) created by Johan Vallon-Christersson
It would be useful to filter reporter table using Array design. This …
10:39 AM Ticket #772 (Exporting features from Array designs) created by Johan Vallon-Christersson
When trying to export features from an array design (from the features …
10:27 AM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Johan Vallon-Christersson
Working on the onk installation BASE 2.4.1 (build #3722; schema #40) I …
10:20 AM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Johan Vallon-Christersson
I agree that it is logical to have the filter plugin configured …
10:01 AM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Jari Häkkinen
Shouldn't the JEP filter plugin come properly configured out-of-the-box?
9:49 AM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Johan Vallon-Christersson
I can verify that the plugin lacked permission to read reporter list. …
9:32 AM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Jari Häkkinen
In which version?
9:31 AM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Jari Häkkinen
Browsing through the jobs I notice that this is the problem occurs …
9:18 AM Tickets #411,​746,​554 batch updated by Nicklas Nordborg
(In [3762]) References #554, #746 and fixes #411. File and directories …
9:18 AM Changeset [3762] by Nicklas Nordborg
References #554, #746 and fixes #411. File and directories diagram …
8:36 AM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
Description changed
8:15 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
Description changed
7:55 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
Description changed

Sep 20, 2007:

11:12 PM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) updated by Nicklas Nordborg
Milestone, Component, Summary changed
I think it is the plug-in you are running that lacks permission to the …
11:03 PM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) closed by Nicklas Nordborg
worksforme: This has already been implemented.
8:03 PM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) created by Johan Vallon-Christersson
When viewing the bioassay table in a Bioassayset, allow the user to …
7:49 PM Ticket #770 (Filter plug-in is lacking permission to read reporter lists) created by Johan Vallon-Christersson
Trying to run a filter that use my own Reporter list. Get error: …
4:57 PM Ticket #769 (Trying to configure AnnotationTypeCvImporter.jar) closed by Nicklas Nordborg
invalid: The first problem is related to ticket #655 which partly will be fixed …
4:37 PM Ticket #769 (Trying to configure AnnotationTypeCvImporter.jar) created by base
Went to Administrate -> Plugins > Definitions Got this non fatal …
3:56 PM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
Description changed
3:47 PM Changeset [3761] by Martin Svensson
Fixes #689 Increase 99 hits per page limit (list views). The limit is …
3:47 PM Ticket #689 (Increase 99 hits per page limit (list views)) closed by Martin Svensson
fixed: (In [3761]) Fixes #689 Increase 99 hits per page limit (list views). …
2:56 PM Ticket #689 (Increase 99 hits per page limit (list views)) updated by Martin Svensson
Status, Owner changed
2:27 PM Ticket #759 (Automatically name Affymetrix array design after the name of the ...) closed by Nicklas Nordborg
wontfix: I just realized that once ticket #721 is fixed this can't be done.
1:35 PM Changeset [3760] by Martin Svensson
Fixes #364, Uses the existing JarClassLoader, when reading/loading …
1:35 PM Ticket #364 (Support for automatic install of non-core plugins) closed by Martin Svensson
fixed: (In [3760]) Fixes #364, Uses the existing JarClassLoader, when …
11:24 AM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3759]) References #364, documentation
11:23 AM Changeset [3759] by Martin Svensson
References #364, documentation
10:53 AM Ticket #621 (Write 'Plate' section) updated by Nicklas Nordborg
Component changed
10:39 AM Ticket #768 (Add information about running reporter update after migration if needed) updated by Jari Häkkinen
Status, Owner changed
10:39 AM Ticket #768 (Add information about running reporter update after migration if needed) created by Jari Häkkinen
9:54 AM Changeset [3758] by Nicklas Nordborg
Branch for working with ticket #721: Store data in files instead of in …
9:50 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
(In [3757]) References #721: Store data in files instead of in the …
9:50 AM Changeset [3757] by Nicklas Nordborg
References #721: Store data in files instead of in the database …
9:12 AM Changeset [3756] by Nicklas Nordborg
Allow 'entrytbl' tags to have a 'frame' attribute in the same way as …

Sep 19, 2007:

2:36 PM Changeset [3755] by Martin Svensson
References #364, documentation
2:36 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3755]) References #364, documentation
1:39 PM Ticket #767 (Migration fails if more than one user has the same quota) closed by Nicklas Nordborg
fixed: (In [3754]) Fixes #767: Migration fails if more than one user has the …
1:38 PM Changeset [3754] by Nicklas Nordborg
Fixes #767: Migration fails if more than one user has the same quota
1:25 PM Ticket #767 (Migration fails if more than one user has the same quota) updated by Nicklas Nordborg
Status changed
1:25 PM Ticket #767 (Migration fails if more than one user has the same quota) created by Nicklas Nordborg
The stacktrace is: […] The migration will create new quota items, …

Sep 18, 2007:

3:47 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3753]) References #364, documentation
3:47 PM Changeset [3753] by Martin Svensson
References #364, documentation
1:35 PM Ticket #524 (Read "Overview of user documentation" section) updated by Martin Svensson
Owner, Status changed
10:17 AM Ticket #732 (Link to basehacks has disappeard) closed by Jari Häkkinen
fixed: The information was already in 3rd-party-components.txt. This …
10:13 AM Changeset [3752] by Jari Häkkinen
Addresses #732.
10:13 AM Ticket #732 (Link to basehacks has disappeard) updated by Jari Häkkinen
(In [3752]) Addresses #732.
10:06 AM Ticket #617 (Write plate management in array LIMS) updated by Johan Enell
Owner, Status changed
9:45 AM ReleaseProcedure edited by Jari Häkkinen
Added item about updating link to latest stable BASE docs. (diff)
9:37 AM Changeset [3751] by Nicklas Nordborg
References #411. Migration should now automatically compress files …
9:37 AM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
(In [3751]) References #411. Migration should now automatically …
9:28 AM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
(In [3750]) References #411. Compiled AffxFusion.jar with target="1.5" …
9:28 AM Changeset [3750] by Nicklas Nordborg
References #411. Compiled AffxFusion.jar with target="1.5" to make it …
9:21 AM Ticket #761 (Not equal in filter doesn't support wildcards) closed by Nicklas Nordborg
fixed: (In [3749]) Fixes #761: Not equal in filter doesn't support wildcards
9:21 AM Changeset [3749] by Nicklas Nordborg
Fixes #761: Not equal in filter doesn't support wildcards
9:02 AM Ticket #761 (Not equal in filter doesn't support wildcards) updated by Nicklas Nordborg
Status changed
9:02 AM Ticket #765 (Deleting an Affymetrix raw bioassay from trashcan generates ...) closed by Nicklas Nordborg
fixed: (In [3748]) Fixes #765: Deleting an Affymetrix raw bioassay from …
9:02 AM Changeset [3748] by Nicklas Nordborg
Fixes #765: Deleting an Affymetrix raw bioassay from trashcan …
8:59 AM Ticket #766 (Batchers may be registered with a DbControl even if constructor throw ...) closed by Nicklas Nordborg
fixed: (In [3747]) Fixes #766: Batchers may be registered with a DbControl
8:59 AM Changeset [3747] by Nicklas Nordborg
Fixes #766: Batchers may be registered with a DbControl even if …
8:33 AM Ticket #766 (Batchers may be registered with a DbControl even if constructor throw ...) updated by Nicklas Nordborg
Owner, Status changed
8:33 AM Ticket #765 (Deleting an Affymetrix raw bioassay from trashcan generates ...) updated by Nicklas Nordborg
Status, Owner changed
See ticket #766 for more info about what is going on here.
8:32 AM Ticket #766 (Batchers may be registered with a DbControl even if constructor throw ...) created by Nicklas Nordborg
This issue is related to #765. What is happening there is that a …

Sep 17, 2007:

8:14 PM Ticket #765 (Deleting an Affymetrix raw bioassay from trashcan generates ...) updated by Nicklas Nordborg
Milestone, Component, Priority changed
8:13 PM Ticket #765 (Deleting an Affymetrix raw bioassay from trashcan generates ...) created by Nicklas Nordborg
Dominic Oyeniran wrote: > I am experiencing the problem with deletion …
8:08 PM Ticket #764 (Selecting Bioassays in the plot tool.) updated by Nicklas Nordborg
Type changed
3:14 PM Ticket #655 (Plugins -> defintions fails with 'illegal attempt to dereference ...) updated by Nicklas Nordborg
Milestone changed
3:14 PM Ticket #655 (Plugins -> defintions fails with 'illegal attempt to dereference ...) updated by Nicklas Nordborg
(In [3746]) References #655: Plugins -> defintions fails with 'illegal …
3:14 PM Changeset [3746] by Nicklas Nordborg
References #655: Plugins -> defintions fails with 'illegal attempt to …
3:10 PM Ticket #751 (Fail to delete item from table view) updated by Jari Häkkinen
This might be a problem due to very heavy load on mysql/tomcat during …
3:07 PM Changeset [3745] by Nicklas Nordborg
Fixes #752: Configuration parameters not preserved when Plugin …
3:07 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) closed by Nicklas Nordborg
fixed: (In [3745]) Fixes #752: Configuration parameters not preserved when …
3:07 PM Ticket #764 (Selecting Bioassays in the plot tool.) created by Johan Vallon-Christersson
Suggested enhancements for plot functionality would enable useful plot …
3:04 PM Changeset [3744] by Martin Svensson
Fixes #763
3:04 PM Ticket #763 (Unresolved id:s in documentation) closed by Martin Svensson
fixed: (In [3744]) Fixes #763
3:03 PM Ticket #763 (Unresolved id:s in documentation) reopened by Martin Svensson
The links don't work to terms inside varlistentry
2:53 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Nicklas Nordborg
Owner, Status changed
2:47 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Johan Enell
Version changed
* Create a plugin configuration * Edit your configuration * Copy …
2:47 PM Changeset [3743] by Nicklas Nordborg
Fixes #753: NullPointerException in plugin configuration list
2:47 PM Ticket #753 (NullPointerException in plugin configuration list) closed by Nicklas Nordborg
fixed: (In [3743]) Fixes #753: NullPointerException in plugin configuration list
2:46 PM Ticket #753 (NullPointerException in plugin configuration list) updated by Nicklas Nordborg
The same problem also appears on the single-item view page and on the …
2:16 PM RobotsTxt edited by Jari Häkkinen
(diff)
2:08 PM Ticket #751 (Fail to delete item from table view) updated by Jari Häkkinen
Milestone changed
2:06 PM Ticket #749 (TAR files with long files names are not supported) updated by Jari Häkkinen
Milestone changed
We are waiting for apache project to finish their code.
2:05 PM Ticket #742 (Refactor BioAssaySetExporter) updated by Jari Häkkinen
Milestone changed
2:05 PM Ticket #741 (Refactor Base1PluginExecuter) updated by Jari Häkkinen
Milestone changed
2:04 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Jari Häkkinen
Milestone changed
2:03 PM Ticket #748 (MeV application fail to load data) updated by Jari Häkkinen
Milestone, Owner, Status changed
2:02 PM Ticket #738 (Implement file upload as a pure servlet) updated by Jari Häkkinen
Milestone changed
2:02 PM Ticket #737 (Script that fixes copyright text may also add extra new line to end of ...) updated by Jari Häkkinen
Milestone changed
2:01 PM Ticket #734 (Un-caught NullPointerException in plugin configurations list view.) closed by Jari Häkkinen
duplicate: Duplicate of ticket:753
1:59 PM Ticket #729 (./jobagent.sh should accept command `status`) updated by Jari Häkkinen
Milestone changed
1:49 PM Ticket #732 (Link to basehacks has disappeard) updated by Jari Häkkinen
Status changed
1:49 PM Ticket #185 (Refactor the Item class and DbControl and more...) updated by Jari Häkkinen
Priority changed
1:40 PM DeveloperInformation edited by Jari Häkkinen
(diff)
1:29 PM Ticket #753 (NullPointerException in plugin configuration list) updated by Nicklas Nordborg
Description, Status, Summary changed
1:25 PM WikiStart edited by Jari Häkkinen
Only show latest docs on first page. (diff)
1:16 PM Changeset [3742] by Nicklas Nordborg
Fixes #735: PermissionDeniedException on array design list view
1:16 PM Ticket #735 (PermissionDeniedException on array design list view) closed by Nicklas Nordborg
fixed: (In [3742]) Fixes #735: PermissionDeniedException on array design list view
1:16 PM Ticket #735 (PermissionDeniedException on array design list view) updated by Nicklas Nordborg
Component changed
1:16 PM Ticket #763 (Unresolved id:s in documentation) closed by Martin Svensson
wontfix: Seems to be some problem in the pdf-generator because the ids exists …
1:12 PM Ticket #735 (PermissionDeniedException on array design list view) updated by Nicklas Nordborg
Status, Owner changed
1:10 PM Ticket #758 (Store number of features in a database column of ArrayDesign) closed by Nicklas Nordborg
fixed: (In [3741]) Fixes #758: Store number of features in a database column …
1:10 PM Changeset [3741] by Nicklas Nordborg
Fixes #758: Store number of features in a database column of ArrayDesign
1:09 PM Ticket #763 (Unresolved id:s in documentation) updated by Martin Svensson
Status changed
1:08 PM Ticket #763 (Unresolved id:s in documentation) created by Martin Svensson
There are some complaints about unresolved ids when generating the …
12:58 PM Ticket #733 (Add support to select plugin configurations that should be imported) closed by Martin Svensson
fixed: (In [3740]) Fixes #733 Documentation
12:58 PM Changeset [3740] by Martin Svensson
Fixes #733 Documentation
9:48 AM WikiStart edited by Jari Häkkinen
Documentation moved somewhat to make place for trunk and latest stable … (diff)
9:29 AM Changeset [3739] by Jari Häkkinen
Removed invalid help info regarding 'ant doc' and 'ant docbook'.
9:29 AM Changeset [3738] by Jari Häkkinen
Removed invalid help info regarding 'ant doc' and 'ant docbook'.
9:28 AM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
(In [3737]) Added modified AffxFusion?.jar that can read from …
9:23 AM Changeset [3737] by Nicklas Nordborg
Added modified AffxFusion.jar that can read from InputStream for some …
8:24 AM Ticket #721 (Store data in files instead of in the database) updated by Nicklas Nordborg
Description changed

Sep 16, 2007:

8:09 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Nicklas Nordborg
Component, Milestone changed
It would be great to have this functionality. The syntax needs to be …
7:56 PM Ticket #761 (Not equal in filter doesn't support wildcards) updated by Nicklas Nordborg
Component, Summary, Priority, Milestone changed
Well, the filter does work. The problem is that it doesn't support the …

Sep 14, 2007:

4:22 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) created by Johan Vallon-Christersson
Expand the list of operators supported by the free-text filter. Add …
4:16 PM not_equal_bug.png attached to Ticket #761 by Johan Enell
4:16 PM Ticket #761 (Not equal in filter doesn't support wildcards) created by Johan Enell
When I try to filter a String column with not equal ( <> ) it does nothing.
3:54 PM Changeset [3736] by Johan Enell
3:52 PM Changeset [3735] by Johan Enell
removed some system.out lines…
3:51 PM Ticket #760 (Make the Base1PluginExecuter use position batcher again.) closed by Johan Enell
fixed: (In [3734]) Fixes #760
3:51 PM Changeset [3734] by Johan Enell
Fixes #760
2:08 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3733]) References #364 The functionallity is more or less done. …
2:08 PM Changeset [3733] by Martin Svensson
References #364 The functionallity is more or less done. The internal …
2:03 PM Changeset [3732] by Martin Svensson
References #733 The PluginConfigurationImporter class can be used …
2:03 PM Ticket #733 (Add support to select plugin configurations that should be imported) updated by Martin Svensson
(In [3732]) References #733 The PluginConfigurationImporter class can …
12:52 PM Ticket #760 (Make the Base1PluginExecuter use position batcher again.) updated by Nicklas Nordborg
Summary, Description changed
11:25 AM Ticket #760 (Make the Base1PluginExecuter use position batcher again.) created by Johan Enell
10:59 AM Ticket #731 (Extend mapping in Base1PluginExecuter) closed by Johan Enell
fixed: (In [3731]) Fixes #731 Added mapping for all hard coded data. …
10:59 AM Changeset [3731] by Johan Enell
Fixes #731 Added mapping for all hard coded data. Corrected some …
9:57 AM Ticket #735 (PermissionDeniedException on array design list view) updated by Nicklas Nordborg
Milestone, Priority changed
I think we need a try-catch around the problematic part in …
8:41 AM Ticket #759 (Automatically name Affymetrix array design after the name of the ...) created by Nicklas Nordborg
The file name is actually used to verify that a CEL file matches the …
8:28 AM Ticket #758 (Store number of features in a database column of ArrayDesign) updated by Nicklas Nordborg
Status, Owner changed
8:28 AM Ticket #758 (Store number of features in a database column of ArrayDesign) created by Nicklas Nordborg
The current implementation doesn't store this information. We must …

Sep 13, 2007:

4:32 PM Changeset [3730] by Johan Enell
Fixes #757
4:32 PM Ticket #757 (BASEFile export wrong name for external id) closed by Johan Enell
fixed: (In [3730]) Fixes #757
4:17 PM Ticket #757 (BASEFile export wrong name for external id) created by Johan Enell
The name for the externl id of a reporter should be reporterId.
4:08 PM Changeset [3729] by Johan Enell
Fixes #739 Removes AnyToAny
4:08 PM Ticket #739 (Base1PluginExecuter ignores leaveStdin/leaveStdout parameters) closed by Johan Enell
fixed: (In [3729]) Fixes #739 Removes AnyToAny
3:46 PM Ticket #739 (Base1PluginExecuter ignores leaveStdin/leaveStdout parameters) reopened by Johan Enell
The AnyToAny link should also be removed.
3:42 PM Ticket #756 (BioAssaySetExporter BASEFile) closed by Johan Enell
fixed: (In [3728]) Fixes #756
3:42 PM Changeset [3728] by Johan Enell
Fixes #756
3:34 PM Ticket #756 (BioAssaySetExporter BASEFile) created by Johan Enell
The ExtraValue names should be exported with the prefix _xc_
3:32 PM Changeset [3727] by Johan Enell
Fixes #739
3:32 PM Ticket #739 (Base1PluginExecuter ignores leaveStdin/leaveStdout parameters) closed by Johan Enell
fixed: (In [3727]) Fixes #739
2:20 PM Ticket #739 (Base1PluginExecuter ignores leaveStdin/leaveStdout parameters) updated by Johan Enell
Status changed
2:19 PM Changeset [3726] by Johan Enell
Fixes #755
2:19 PM Ticket #755 (Base1PluginExecuter permission) closed by Johan Enell
fixed: (In [3726]) Fixes #755
2:18 PM Ticket #755 (Base1PluginExecuter permission) created by Johan Enell
The Base1PluginExecuter needs CREATE and USE permisison on ExtraValueType
12:59 AM Changeset [3725] by Jari Häkkinen
Merged patch release 2.4.1 to the trunk. Delta 2.4.1 - 2.4.
12:58 AM ReleaseProcedure edited by Jari Häkkinen
(diff)
12:55 AM Changeset [3724] by Jari Häkkinen
Merged patch release 2.4.1 to the webservices bracnh. Delta 2.4.1 - 2.4.
12:37 AM Milestone BASE 2.4.1 completed
Revision Log: log:branches/2.4-stable@3693:3722
12:37 AM ReleaseProcedure edited by Jari Häkkinen
(diff)
12:35 AM Ticket #744 (Make it possible to resume the migration program in case of a failure) closed by Jari Häkkinen
fixed
12:32 AM DownloadPage edited by Jari Häkkinen
Releasing 2.4.1 (diff)
12:20 AM Changeset [3723] by Jari Häkkinen
Changes for future release 2.4.2
12:06 AM Changeset [3722] by Jari Häkkinen
Tagging release 2.4.1

Sep 12, 2007:

10:25 PM Changeset [3721] by Jari Häkkinen
Preparing release 2.4.1
4:36 PM Ticket #739 (Base1PluginExecuter ignores leaveStdin/leaveStdout parameters) updated by Johan Enell
Owner changed
4:01 PM Ticket #733 (Add support to select plugin configurations that should be imported) updated by Martin Svensson
(In [3720]) References #733. The PluginConfigurationImporter can now …
4:01 PM Changeset [3720] by Martin Svensson
References #733. The PluginConfigurationImporter can now import a …
3:03 PM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
(In [3719]) References #411: Most of the basic functionality is now in …
3:02 PM Changeset [3719] by Nicklas Nordborg
References #411: Most of the basic functionality is now in place and …
2:57 PM Ticket #751 (Fail to delete item from table view) updated by Nicklas Nordborg
If the page doesn't refresh, there is probably some error somewhere. …
2:55 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Nicklas Nordborg
Please provide step-by-step instruction about how to reproduce this. …
1:31 PM Ticket #753 (NullPointerException in plugin configuration list) updated by Johan Enell
I think the exception comes from line 492 in the file …
1:28 PM Changeset [3718] by Johan Enell
References #753 Added null check in the NameablePluginAdaptor
1:28 PM Ticket #753 (NullPointerException in plugin configuration list) updated by Johan Enell
(In [3718]) References #753 Added null check in the NameablePluginAdaptor
1:01 PM Changeset [3717] by Johan Enell
removed some unused code
1:00 PM Ticket #754 (Base1PluginExecuter throws NullPointer) closed by Johan Enell
fixed: (In [3716]) Fixes #754
1:00 PM Changeset [3716] by Johan Enell
Fixes #754
11:51 AM Ticket #754 (Base1PluginExecuter throws NullPointer) created by Johan Enell
The Base1PluginExecuter throws a NullPointer from the isInContext method.
11:29 AM Ticket #753 (NullPointerException in plugin configuration list) created by Johan Enell
If I try to list plugin configurations (with the definition column) …
11:18 AM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Johan Vallon-Christersson
Enell suggests that it might be a problem with version handling, …
10:59 AM Ticket #751 (Fail to delete item from table view) updated by Johan Vallon-Christersson
Replying to nicklas: > Any error messages? It works fine …
10:45 AM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Johan Vallon-Christersson
Replying to nicklas: > This sounds like you have mixed up …

Sep 11, 2007:

8:57 PM Ticket #750 (Raw bioassays: display plugin configuration used to import data) closed by Nicklas Nordborg
wontfix: This information is not stored so it can't be displayed.
8:57 PM Ticket #751 (Fail to delete item from table view) updated by Nicklas Nordborg
Any error messages? It works fine when I try it.
8:55 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) updated by Nicklas Nordborg
This sounds like you have mixed up your configurations. I am not able …
4:37 PM Ticket #752 (Configuration parameters not preserved when Plugin configuration copied) created by Johan Vallon-Christersson
When creating a new Plugin configuration by copying an existing …
4:10 PM Ticket #751 (Fail to delete item from table view) created by Johan Vallon-Christersson
When in table view an item is marked (by check box). Selecting delete …
3:52 PM Ticket #750 (Raw bioassays: display plugin configuration used to import data) created by Johan Vallon-Christersson
For Raw bioassays display the plugin and plugin configuration used to …
2:03 PM Ticket #655 (Plugins -> defintions fails with 'illegal attempt to dereference ...) reopened by Nicklas Nordborg
We never fixed the "Add file format" button from the auto-detect file …
1:19 PM Ticket #411 (Extending compressed file support and storage) updated by Nicklas Nordborg
Status changed
1:13 PM Tickets #746,​554 batch updated by Nicklas Nordborg
(In [3715]) References #746 and #554. Added new new UML file for …
1:13 PM Changeset [3715] by Nicklas Nordborg
References #746 and #554. Added new new UML file for MagicDraw 12.5. …
1:11 PM Ticket #554 (Write "Core developer reference.") updated by Nicklas Nordborg
Description changed
12:56 PM Ticket #749 (TAR files with long files names are not supported) created by Nicklas Nordborg
The package for TAR that is used in BASE …

Sep 10, 2007:

4:17 PM Ticket #364 (Support for automatic install of non-core plugins) updated by Martin Svensson
(In [3714]) References #364.
4:17 PM Changeset [3714] by Martin Svensson
References #364.
2:42 PM Ticket #748 (MeV application fail to load data) created by Johan Vallon-Christersson
When trying to launch MeV (through the BASE 2 demo site) data fails to …

Sep 7, 2007:

11:23 AM Ticket #744 (Make it possible to resume the migration program in case of a failure) updated by Jari Häkkinen
(In [3713]) Addresses #744. Added information about migration restart …
11:23 AM Changeset [3713] by Jari Häkkinen
Addresses #744. Added information about migration restart do documentation.
Note: See TracTimeline for information about the timeline view.