Timeline



Nov 12, 2008:

12:19 PM Ticket #1169 (Create a function that changes an existing BASE database to use UTF-8) created by Nicklas Nordborg
See #1168 for background info. The script provided with the BASE …
11:45 AM Ticket #1168 (Require UTF-8 to be used as database character set) created by Nicklas Nordborg
A side effect of #792 is that we must be able to store non-latin1 …

Nov 11, 2008:

12:08 PM Changeset [4635] by Nicklas Nordborg
References #792: Add support for units to annotation values Use the …
7:51 AM Changeset [4634] by Nicklas Nordborg
References #792: Add support for units to annotation values Use the …

Nov 10, 2008:

4:35 PM Changeset [4633] by Martin Svensson
Fixes #1151 User role-test can now test batch importers. Documentation …
4:35 PM Ticket #1151 (Create a batch-importer version of the 'roles' test procedure) closed by Martin Svensson
fixed: (In [4633]) Fixes #1151 User role-test can now test batch importers. …

Nov 7, 2008:

2:46 PM Changeset [4632] by Nicklas Nordborg
References #792: Add support for units to annotation values Fixes a …
12:06 PM Ticket #1167 (Base1PluginExecutor should handle reporter-id=0 as null in some cases) closed by Nicklas Nordborg
fixed: (In [4631]) Fixes #1167: Base1PluginExecutor should handle …
12:06 PM Changeset [4631] by Nicklas Nordborg
Fixes #1167: Base1PluginExecutor should handle reporter-id=0 as null …
11:15 AM Ticket #1167 (Base1PluginExecutor should handle reporter-id=0 as null in some cases) created by Nicklas Nordborg
There is a problem with some BASE1 plug-ins when a bioassay set has …
9:38 AM Ticket #792 (Add support for units to annotation values) closed by Nicklas Nordborg
fixed: Seems to be working ok.
9:36 AM Changeset [4630] by Nicklas Nordborg
Fixes #1133: Experimental factors - inherit annotations
9:36 AM Ticket #1133 (Experimental factors - inherit annotations) closed by Nicklas Nordborg
fixed: (In [4630]) Fixes #1133: Experimental factors - inherit annotations

Nov 6, 2008:

9:26 AM Changeset [4629] by Nicklas Nordborg
References #1162: Raw bioassay importer fails with …

Nov 5, 2008:

4:43 PM Changeset [4628] by Martin Svensson
References #1151 Refactored to better use the existing code in the …
12:06 PM Ticket #1154 (Add a 'Plug-in package' item for grouping plug-ins) closed by Nicklas Nordborg
wontfix: Well.... this is maybe not so useful after all. It is simple to just …
12:02 PM Ticket #1139 (Display the barcode for array slide in the hybridization information page) closed by Nicklas Nordborg
fixed: (In [4627]) Fixes #1139: Display the barcode for array slide in the …
12:02 PM Changeset [4627] by Nicklas Nordborg
Fixes #1139: Display the barcode for array slide in the hybridization …
10:56 AM Changeset [4626] by Nicklas Nordborg
Fixes #1164: Reporter importer plug-in displays 'Reporter ID' when …
10:56 AM Ticket #1164 (Reporter importer plug-in displays 'Reporter ID' when setting column ...) closed by Nicklas Nordborg
fixed: (In [4626]) Fixes #1164: Reporter importer plug-in displays 'Reporter …

Nov 4, 2008:

4:45 PM Changeset [4625] by Martin Svensson
References #1151 Created new classes which do the power user-role test …
2:56 PM Changeset [4624] by Nicklas Nordborg
Fixes #1155: Automatic plug-in registration wizard should group …
2:56 PM Ticket #1155 (Automatic plug-in registration wizard should group plug-ins by JAR file) closed by Nicklas Nordborg
fixed: (In [4624]) Fixes #1155: Automatic plug-in registration wizard should …
11:26 AM Ticket #1166 (Store creation date for items) created by Johan Vallon-Christersson
Replaces ticket:966 This ticket is about support in the core …
10:41 AM Ticket #1165 (Option to insert Block number when importing reporter map with Meta ...) closed by Nicklas Nordborg
worksforme: This can be done in the configuration settings. Just enter the desired …
10:34 AM Ticket #1165 (Option to insert Block number when importing reporter map with Meta ...) created by Johan Vallon-Christersson
When using plugin: Reporter map importer. I have a reporter map with …
10:15 AM Ticket #1164 (Reporter importer plug-in displays 'Reporter ID' when setting column ...) created by Jari Häkkinen
In reporter listings there is no 'Reporter ID' column and it takes …

Nov 3, 2008:

9:32 AM Changeset [4623] by Nicklas Nordborg
Fixes #1163: Set name of child bioassay when there is only one parent
9:32 AM Ticket #1163 (Set name of child bioassay when there is only one parent) closed by Nicklas Nordborg
fixed: (In [4623]) Fixes #1163: Set name of child bioassay when there is only …
9:22 AM Ticket #1163 (Set name of child bioassay when there is only one parent) created by Nicklas Nordborg
Currently, the BioAssaySet?.newBioAssay(BioAssay?) copies the name of …

Oct 31, 2008:

11:00 AM Changeset [4622] by Nicklas Nordborg
Fixes #1162: Raw bioassay importer fails with …
11:00 AM Ticket #1162 (Raw bioassay importer fails with InvalidUseOfNullException when raw ...) closed by Nicklas Nordborg
fixed: (In [4622]) Fixes #1162: Raw bioassay importer fails with …
10:57 AM Ticket #1162 (Raw bioassay importer fails with InvalidUseOfNullException when raw ...) created by Nicklas Nordborg
The error message should be an ItemNotFoundException? instead so users …
10:51 AM Changeset [4621] by Nicklas Nordborg
Fixes #1158: Improving plugin autodetection
10:51 AM Ticket #1158 (Improving plugin autodetection) closed by Nicklas Nordborg
fixed: (In [4621]) Fixes #1158: Improving plugin autodetection
9:54 AM Ticket #394 (Make it possible to export and properly query values in components) closed by Nicklas Nordborg
fixed: (In [4620]) Fixes #394: Make it possible to export and properly query …
9:54 AM Changeset [4620] by Nicklas Nordborg
Fixes #394: Make it possible to export and properly query values in …

Oct 30, 2008:

2:35 PM Changeset [4619] by Nicklas Nordborg
References #1129: Filtering of child/parent items in table listing …
11:41 AM Changeset [4618] by Nicklas Nordborg
Fixes #1161: Improve error handling in the extension system
11:41 AM Ticket #1161 (Improve error handling in the extension system) closed by Nicklas Nordborg
fixed: (In [4618]) Fixes #1161: Improve error handling in the extension system
8:19 AM Ticket #1149 (Mark related items for removal when "parent" item is marked for removal) closed by Martin Svensson
fixed: (In [4617]) Fixes #1149 Mark related items for removal when "parent" …
8:19 AM Changeset [4617] by Martin Svensson
Fixes #1149 Mark related items for removal when "parent" item is …

Oct 29, 2008:

12:11 PM Ticket #1161 (Improve error handling in the extension system) created by Nicklas Nordborg
The problem is that while an extension may be successfully installed …
11:21 AM Changeset [4616] by Jari Häkkinen
Typo
9:59 AM Changeset [4615] by Nicklas Nordborg
References #1159: Annotation importer should detect non-existing …
9:58 AM Changeset [4614] by Nicklas Nordborg
Fixes #1159: Annotation importer should detect non-existing column mappings
9:58 AM Ticket #1159 (Annotation importer should detect non-existing column mappings) closed by Nicklas Nordborg
fixed: (In [4614]) Fixes #1159: Annotation importer should detect …
9:23 AM Ticket #1129 (Filtering of child/parent items in table listing) closed by Nicklas Nordborg
fixed: (In [4613]) Fixes #1129: Filtering of child/parent items in table …
9:23 AM Changeset [4613] by Nicklas Nordborg
Fixes #1129: Filtering of child/parent items in table listing …

Oct 28, 2008:

4:41 PM Changeset [4612] by Martin Svensson
References #1149 Items that are linked to from a transformation are …
3:00 PM Ticket #1160 (MeV export: Base1 style column headers should be changed to BASE 2 style) created by Jari Häkkinen
The three first column headers in MeV export uses Base1 names. These …
2:50 PM Changeset [4611] by Nicklas Nordborg
References #1092: Add listing of child items that are the same type as …
2:20 PM Changeset [4610] by Nicklas Nordborg
References #1129: Filtering of child/parent items in table listing …
1:22 PM Changeset [4609] by Nicklas Nordborg
References #1129: Filtering of child/parent items in table listing …
1:20 PM Changeset [4608] by Nicklas Nordborg
References #792: Add support for units to annotation values Fixes …
9:16 AM Changeset [4607] by Nicklas Nordborg
References #1129: Filtering of child/parent items in table listing …

Oct 27, 2008:

4:20 PM Changeset [4606] by Martin Svensson
Fixes #1152 Improve transaction handling in Base1PluginExecuter. There …
4:20 PM Ticket #1152 (Improve transaction handling in Base1PluginExecuter) closed by Martin Svensson
fixed: (In [4606]) Fixes #1152 Improve transaction handling in …
10:00 AM Changeset [4605] by Nicklas Nordborg
Merged patch release 2.8.4 to the trunk
9:45 AM Milestone BASE 2.8.4 completed
Bug fixes for 2.8.3. Revision Log: log:branches/2.8-stable@4583:4603
9:45 AM DownloadPage edited by Nicklas Nordborg
Releasing 2.8.4 (diff)
9:41 AM Changeset [4604] by Nicklas Nordborg
Changes for future release 2.8.5
9:24 AM Changeset [4603] by Nicklas Nordborg
Tagging version 2.8.4
9:23 AM Changeset [4602] by Nicklas Nordborg
Preparing release 2.8.4
9:06 AM Ticket #1159 (Annotation importer should detect non-existing column mappings) created by Nicklas Nordborg
The detection should be done in the job configuration phase and …
9:02 AM Ticket #1157 (Annotation importer fails with NullPointerException in end()) closed by Nicklas Nordborg
fixed: (In [4601]) Fixes #1157: Annotation importer fails with …
9:02 AM Changeset [4601] by Nicklas Nordborg
Fixes #1157: Annotation importer fails with NullPointerException? in end()
8:30 AM Ticket #1157 (Annotation importer fails with NullPointerException in end()) reopened by Nicklas Nordborg
Hmmm... I can't see how a missing Data footer in the file can lead to …

Oct 24, 2008:

4:22 PM Ticket #1157 (Annotation importer fails with NullPointerException in end()) closed by Jari Häkkinen
invalid: After getting more details about this I realize that there was a 'Data …
1:43 PM Changeset [4600] by Nicklas Nordborg
Fixes #1156: Add support for ALL and ANY constructs to the Query API
1:43 PM Ticket #1156 (Add support for ALL and ANY constructs to the Query API) closed by Nicklas Nordborg
fixed: (In [4600]) Fixes #1156: Add support for ALL and ANY constructs to the …
8:39 AM Changeset [4599] by Nicklas Nordborg
References #1157: Removed last empty line to check if this breaks the …

Oct 23, 2008:

10:28 PM Ticket #1158 (Improving plugin autodetection) created by Jari Häkkinen
The auto detection of plug-ins can be improved. As it is now starting …
4:16 PM Ticket #1157 (Annotation importer fails with NullPointerException in end()) created by Jari Häkkinen
The number of columns is correct. After adding the new line in the …
12:38 PM Ticket #1156 (Add support for ALL and ANY constructs to the Query API) created by Nicklas Nordborg
This is needed for solving #1129. It would allow create queries like …

Oct 22, 2008:

1:41 PM Changeset [4598] by Nicklas Nordborg
References #1145: Make the generic raw data importer support batch …
1:07 PM Ticket #1155 (Automatic plug-in registration wizard should group plug-ins by JAR file) created by Nicklas Nordborg
When there are many plug-in JAR files in the base.plugins directory …
1:00 PM Ticket #1154 (Add a 'Plug-in package' item for grouping plug-ins) created by Nicklas Nordborg
The plug-in administration page contains more and more plug-ins. It …
11:46 AM Changeset [4597] by Martin Svensson
Fixes #1142 Lack of permission when trying to write to an item or use …
11:46 AM Ticket #1142 (Batch importer plug-ins should handle lack of USE permission better) closed by Martin Svensson
fixed: (In [4597]) Fixes #1142 Lack of permission when trying to write to an …
10:43 AM Ticket #1153 (Handling short read transcript sequence data) created by base
This may not be a "core" issue, it might be achieved with core or …
9:19 AM Changeset [4596] by Nicklas Nordborg
References #792: Add support for units to annotation values Fixes a …

Oct 21, 2008:

11:33 AM Ticket #1142 (Batch importer plug-ins should handle lack of USE permission better) reopened by Martin Svensson
There are two more cases where the permission handling can be improved.
9:44 AM Changeset [4595] by Martin Svensson
Fixes #1142 Batch importer plug-ins should handle lack of USE …
9:44 AM Ticket #1142 (Batch importer plug-ins should handle lack of USE permission better) closed by Martin Svensson
fixed: (In [4595]) Fixes #1142 Batch importer plug-ins should handle lack of …
9:20 AM Changeset [4594] by Nicklas Nordborg
Fixes #1145: Make the generic raw data importer support batch import
9:20 AM Ticket #1145 (Make the generic raw data importer support batch import) closed by Nicklas Nordborg
fixed: (In [4594]) Fixes #1145: Make the generic raw data importer support …
8:56 AM Ticket #1152 (Improve transaction handling in Base1PluginExecuter) created by Nicklas Nordborg
The Base1PluginExecuter currently opens and closes transactions in …
8:47 AM Changeset [4593] by Nicklas Nordborg
Fixes #1150: Incorrect mapping of BASE1/BASE2 differences by …
8:47 AM Ticket #1150 (Incorrect mapping of BASE1/BASE2 differences by Base1PluginExecuter) closed by Nicklas Nordborg
fixed: (In [4593]) Fixes #1150: Incorrect mapping of BASE1/BASE2 differences …

Oct 20, 2008:

12:58 PM Ticket #1151 (Create a batch-importer version of the 'roles' test procedure) created by Nicklas Nordborg
The 'roles' test program is already 1. A manual test procedure to …
11:08 AM Changeset [4592] by Nicklas Nordborg
References #1150: Incorrect mapping of BASE1/BASE2 differences by …
9:08 AM Changeset [4591] by Nicklas Nordborg
Fixes #1147: Incorrect result from isUsed() method prevents deletion …
9:08 AM Ticket #1147 (Incorrect result from isUsed() method prevents deletion of some items) closed by Nicklas Nordborg
fixed: (In [4591]) Fixes #1147: Incorrect result from isUsed() method …

Oct 17, 2008:

9:18 AM Ticket #1150 (Incorrect mapping of BASE1/BASE2 differences by Base1PluginExecuter) created by Nicklas Nordborg
As an example if a BASE1-plugin asks for 'geneSymbol' the generated …

Oct 16, 2008:

10:06 PM Ticket #1149 (Mark related items for removal when "parent" item is marked for removal) created by Jari Häkkinen
When a transformation is deleted in the analysis view the created …
9:57 PM Ticket #1148 (Removing items from trashcan when circular references exists ...) created by Jari Häkkinen
is probably not easy. However, when an item is blocked by another item …
9:48 PM Ticket #1147 (Incorrect result from isUsed() method prevents deletion of some items) created by Jari Häkkinen
The trashcan view shows the dependency icon for the item but clicking …
9:26 PM Changeset [4590] by Jari Häkkinen
Fixed typo.
1:23 PM Ticket #1146 (updateindexes.sh should create indexes for foreign keys) closed by Nicklas Nordborg
fixed: (In [4589]) Fixes #1146: updateindexes.sh should create indexes for …
1:23 PM Changeset [4589] by Nicklas Nordborg
Fixes #1146: updateindexes.sh should create indexes for foreign keys
12:13 PM Changeset [4588] by Martin Svensson
Fixes #1136 Give away/set owner of items
12:13 PM Ticket #1136 (Give away/set owner of items) closed by Martin Svensson
fixed: (In [4588]) Fixes #1136 Give away/set owner of items
11:25 AM Ticket #1146 (updateindexes.sh should create indexes for foreign keys) created by Nicklas Nordborg
MySQL automatically generates an index on all foreign key columns, but …
8:31 AM Ticket #1145 (Make the generic raw data importer support batch import) created by Nicklas Nordborg
This ticket replaces #1135. The multi-import feature should be …
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