Timeline



Mar 23, 2009:

6:00 PM Ticket #1267 (The nice colourful display of ratios in experiment explorer should ...) closed by Nicklas Nordborg
worksforme: This can be configured on the formula.
5:26 PM Ticket #1267 (The nice colourful display of ratios in experiment explorer should ...) created by jari
I have users requesting the colour square also for M values. Is this …
5:24 PM Ticket #1266 (Bioplate coordinates are numbers but it would be better to have ...) created by jari
Bioplate row/col coordinates are numbers [0..n,0..m] whereas the …
4:46 PM Changeset [4830] by Martin Svensson
References #1240. Some adjustments on menuitems' tooltip- and cursor- …
3:36 PM Ticket #1261 (Global cache for static data) closed by Nicklas Nordborg
fixed
3:28 PM Changeset [4829] by Nicklas Nordborg
Fixes #903: Experiment Explorer is slow Store list of position in the …
3:28 PM Ticket #903 (Experiment Explorer is slow) closed by Nicklas Nordborg
fixed: (In [4829]) Fixes #903: Experiment Explorer is slow Store list of …
1:10 PM Changeset [4828] by Nicklas Nordborg
Fixes #1262: Overview and correction factor plots should use the …
1:10 PM Ticket #1262 (Overview and correction factor plots should use the static cache) closed by Nicklas Nordborg
fixed: (In [4828]) Fixes #1262: Overview and correction factor plots should …
1:09 PM Changeset [4827] by Nicklas Nordborg
References #1261: Global cache for static data The cache is now …

Mar 21, 2009:

11:45 AM Ticket #1263 (Set some values automatically when creating items with the batch importers) closed by Nicklas Nordborg
duplicate: Part i) of this ticket is now replaced by #1264 and #1265. Part ii) …
11:44 AM Ticket #1265 (Hybridization batch importer should set "number of arrays" automatically) created by Nicklas Nordborg
This should happen in a similar way as in the GUI if: * The value …
11:42 AM Ticket #1264 (Raw bioassay batch importer should set array design automatically) created by Nicklas Nordborg
This should happen in a similar way as in the GUI if: * No array …

Mar 20, 2009:

8:08 PM Changeset [4826] by Nicklas Nordborg
Added missing file
4:33 PM Ticket #1263 (Set some values automatically when creating items with the batch importers) created by jari
In the tickets referenced below some smartness was added to the GUI …
3:41 PM Changeset [4825] by Nicklas Nordborg
References #1262: Overview and correction factor plots should use the …
3:40 PM Changeset [4824] by Nicklas Nordborg
References #1261: Global cache for static data A prototype …
11:19 AM Ticket #1262 (Overview and correction factor plots should use the static cache) created by Nicklas Nordborg
There is no need to re-generate the plots every time a user visits the …
8:58 AM Ticket #1261 (Global cache for static data) created by Nicklas Nordborg
Implement a global, file-based, cache that can be used to store …

Mar 19, 2009:

4:08 PM Changeset [4823] by Martin Svensson
References #1240. The node-icons are getting updated when expanding …
3:28 PM Ticket #1260 (Incorrect title on import dialog when opened from array slide and ...) created by jari
Clicking of the import button starts the hybridization importer?? …
2:06 PM Changeset [4822] by Nicklas Nordborg
Fixes #1255: Make annotation importer handle units
2:06 PM Ticket #1255 (Make annotation importer handle units) closed by Nicklas Nordborg
fixed: (In [4822]) Fixes #1255: Make annotation importer handle units
9:13 AM Ticket #1216 (Annotation importer selects "wrong" configuration) closed by Nicklas Nordborg
worksforme: Closing this ticket since no feedback has been provided.
9:12 AM Ticket #1079 (Raw data import takes very long time to fail when user exceeds quota) closed by Nicklas Nordborg
invalid: Closing this ticket since no feedback has been provided.
9:12 AM Ticket #1195 (Problem when importing negative values for annotations with float as ...) closed by Nicklas Nordborg
invalid: Closing this ticket since no feedback has been provided.
9:05 AM Ticket #1256 (Query used in exportPlainMatrix method in BioAssaySetExporter must be ...) closed by Nicklas Nordborg
wontfix: Since it is a bad idea to repeat the query I think the core should not …

Mar 18, 2009:

3:42 PM Changeset [4821] by Nicklas Nordborg
References #1238: Check performance of BioAssaySetExporter? Need …
2:18 PM Changeset [4820] by Nicklas Nordborg
References #1238: Check performance of BioAssaySetExporter? Fixes a …
2:10 PM Changeset [4819] by Nicklas Nordborg
References #1248: Long running job may cause a timeout on session on …

Mar 17, 2009:

11:44 AM Ticket #1244 (Incorrect documentation in MenuItemAction) closed by Nicklas Nordborg
fixed: (In [4818]) Fixes #1244: Incorrect documentation in MenuItemAction?
11:44 AM Changeset [4818] by Nicklas Nordborg
Fixes #1244: Incorrect documentation in MenuItemAction?
10:53 AM Ticket #1251 (Improvements of the 'performance' test program) closed by Nicklas Nordborg
fixed
10:53 AM Ticket #1238 (Check performance of BioAssaySetExporter) closed by Nicklas Nordborg
fixed
9:07 AM Changeset [4817] by Nicklas Nordborg
References #903: Experiment Explorer is slow Testing the idea of …

Mar 16, 2009:

3:15 PM Changeset [4816] by Martin Svensson
References #1240 The item-overview tree is now using lazy loading. The …
2:41 PM Changeset [4815] by Nicklas Nordborg
References #903: Experiment Explorer is slow Testing the idea of …
9:39 AM Ticket #1257 (Use multiple threads in Lowess) closed by Nicklas Nordborg
fixed: (In [4814]) Fixes #1257: Use multiple threads in Lowess Removed debug …
9:39 AM Changeset [4814] by Nicklas Nordborg
Fixes #1257: Use multiple threads in Lowess Removed debug output.
9:24 AM Changeset [4813] by Nicklas Nordborg
References #1257: Use multiple threads in Lowess Now uses …
9:09 AM Ticket #1259 (Exporting spot data (with table exporter): Bioassay column is ...) closed by Nicklas Nordborg
wontfix: No it not possible for the exporter to have this information. It …
8:57 AM Ticket #1259 (Exporting spot data (with table exporter): Bioassay column is ...) created by jari
How do I as a user know which bioassay 1, 2, 3 and so on corresponds …

Mar 13, 2009:

3:55 PM Ticket #1258 (New export format for bioassay set spot data) created by jari
It would be nice to be able to export bioassay set spot data without …
3:05 PM Changeset [4812] by Nicklas Nordborg
References #1257: Use multiple threads in Lowess Trying a different …
2:00 PM Changeset [4811] by Nicklas Nordborg
References #1257: Use multiple threads in Lowess Checking in a …
12:44 PM Changeset [4810] by Nicklas Nordborg
References #1238: Check performance of BioAssaySetExporter? Cleaning …
11:37 AM Changeset [4809] by Nicklas Nordborg
References #903: Experiment Explorer is slow Sort positions in …
11:09 AM Changeset [4808] by Nicklas Nordborg
References #903: Experiment Explorer is slow Increased the cache to …
8:21 AM Ticket #1257 (Use multiple threads in Lowess) created by Nicklas Nordborg
The Lowess plug-in is spending most if it's time doing calculations, …

Mar 12, 2009:

11:13 AM Changeset [4807] by Nicklas Nordborg
References #1238: Check performance of BioAssaySetExporter? This "fix" …

Mar 11, 2009:

12:24 PM Ticket #1256 (Query used in exportPlainMatrix method in BioAssaySetExporter must be ...) created by jari
... I think. My problem is that I export a plain matrix, make …
8:43 AM Specifications/Test_procedures edited by Nicklas Nordborg
Linking to new performance test document (diff)
8:40 AM Specifications/Test_procedures/Roles edited by Nicklas Nordborg
(diff)

Mar 10, 2009:

6:06 PM Ticket #1255 (Make annotation importer handle units) created by jari
The annotation importer should be able to handle units, refs …
6:02 PM Ticket #1254 (How about change of file type for list of files?) created by jari
Add support to change file type for files selected in the file viewer, …
5:56 PM Ticket #978 (Unzipped files never inherit file type specified during upload) reopened by jari
Reopening this ticket and adding to the BASE 3.0 milestone for …
5:34 PM Ticket #1253 (plainMatrixExport documentation needs to be clarified) created by jari
The documentation says that reporters and assays are ordered in …
3:02 PM Changeset [4806] by Nicklas Nordborg
References #1251: Improvements of the 'performance' test program 1-4 …
2:49 PM Ticket #1252 (Core export plug-ins section; bioassay set exports) created by jari
We should add information on what file formats can be exported ... …
9:18 AM Changeset [4805] by Nicklas Nordborg
References #1251: Improvements of the 'performance' test program …
9:09 AM Ticket #1251 (Improvements of the 'performance' test program) created by Nicklas Nordborg
I will gather a few enhancements to the 'performance' test program …
9:05 AM Changeset [4804] by Nicklas Nordborg
Fixes #1250: The internal job queue start jobs that has been marked as …
9:05 AM Ticket #1250 (The internal job queue start jobs that has been marked as "removed") closed by Nicklas Nordborg
fixed: (In [4804]) Fixes #1250: The internal job queue start jobs that has …

Mar 9, 2009:

1:41 PM Features edited by jari
(diff)

Mar 6, 2009:

3:37 PM Changeset [4803] by Nicklas Nordborg
References #1238: Check performance of BioAssaySetExporter? Added test …
2:54 PM Ticket #1250 (The internal job queue start jobs that has been marked as "removed") created by Nicklas Nordborg
1. Do anything that ends up in registration of a job, for example, an …
10:44 AM Ticket #1249 (Error message explanation subsection in FAQ part of the manual) created by jari
We should probably add a section explaining some error messages in the …
9:16 AM Changeset [4802] by Nicklas Nordborg
Fixes #1247: BioAssaySetExporter? doesn't update progress when …
9:16 AM Ticket #1247 (BioAssaySetExporter doesn't update progress when exporting to BASEFile ...) closed by Nicklas Nordborg
fixed: (In [4802]) Fixes #1247: BioAssaySetExporter? doesn't update progress …

Mar 5, 2009:

1:26 PM Changeset [4801] by Nicklas Nordborg
Fixes #1248: Long running job may cause a timeout on session on …
1:26 PM Ticket #1248 (Long running job may cause a timeout on session on internal job queue) closed by Nicklas Nordborg
fixed: (In [4801]) Fixes #1248: Long running job may cause a timeout on …
12:44 PM Ticket #1246 (Annotation importer refuses to skip bad lines) closed by Martin Svensson
fixed: (In [4800]) Fixes #1246 Annotation importer refuses to skip bad lines. …
12:44 PM Changeset [4800] by Martin Svensson
Fixes #1246 Annotation importer refuses to skip bad lines. …
12:34 PM Changeset [4799] by Martin Svensson
Removed unused import
8:54 AM Ticket #1248 (Long running job may cause a timeout on session on internal job queue) created by Nicklas Nordborg
It seems like if a job doesn't do anything for some time that triggers …

Mar 4, 2009:

1:07 PM Ticket #1247 (BioAssaySetExporter doesn't update progress when exporting to BASEFile ...) created by Nicklas Nordborg
The progress stands at 0% until the export has finished. If exporting …

Mar 3, 2009:

8:45 AM Ticket #1241 (Implement "lazy loading" of the directory tree) closed by Nicklas Nordborg
fixed: (In [4798]) Fixes #1241: Implement "lazy loading" of the directory …
8:45 AM Ticket #1242 (Generate <img> tag for spot images with a class attribute) reopened by Nicklas Nordborg
Oopss.. the previous commit should have gone to #1241.
8:43 AM Changeset [4798] by Nicklas Nordborg
Fixes #1242: Implement "lazy loading" of the directory tree Forgot …
8:43 AM Ticket #1242 (Generate <img> tag for spot images with a class attribute) closed by Nicklas Nordborg
fixed: (In [4798]) Fixes #1242: Implement "lazy loading" of the directory …
8:42 AM Changeset [4797] by Nicklas Nordborg
Fixes #1245: Add support for lazy loading of nodes in JoustTree? Made …
8:42 AM Ticket #1245 (Add support for lazy loading of nodes in JoustTree) closed by Nicklas Nordborg
fixed: (In [4797]) Fixes #1245: Add support for lazy loading of nodes in …

Mar 2, 2009:

7:58 PM Changeset [4796] by Nicklas Nordborg
References #1241: Implement "lazy loading" of the directory tree We …
2:33 PM Ticket #1246 (Annotation importer refuses to skip bad lines) created by jari
I have a file (attached) that refuses to import. All lines with valid …
11:34 AM Changeset [4795] by Nicklas Nordborg
References #1245: Add support for lazy loading of nodes in JoustTree?
11:32 AM Changeset [4794] by Nicklas Nordborg
References #1241: Implement "lazy loading" of the directory tree I …

Feb 27, 2009:

2:52 PM Changeset [4793] by Nicklas Nordborg
References #1245: Add support for lazy loading of nodes in JoustTree?
12:32 PM DownloadPage edited by Martin Svensson
Changed an Invalid link (diff)
11:49 AM Ticket #1245 (Add support for lazy loading of nodes in JoustTree) created by Nicklas Nordborg
The JoustTree? component is used to generate various overviews that are …
8:54 AM Ticket #1244 (Incorrect documentation in MenuItemAction) created by Nicklas Nordborg
The class documentation for …

Feb 26, 2009:

2:43 PM Ticket #1237 (BioAssaySetExporter should attach generated files to the bioassayset) closed by Nicklas Nordborg
fixed
9:28 AM Changeset [4792] by Nicklas Nordborg
References #1237: BioAssaySetExporter? should attach generated files to …

Feb 25, 2009:

10:55 AM Changeset [4791] by Nicklas Nordborg
References #1237: BioAssaySetExporter? should attach generated files to …
9:58 AM Changeset [4790] by Nicklas Nordborg
Fixes #1243: Fix TestBioAssaySetExporter? and include it in TestAll?
9:58 AM Ticket #1243 (Fix TestBioAssaySetExporter and include it in TestAll) closed by Nicklas Nordborg
fixed: (In [4790]) Fixes #1243: Fix TestBioAssaySetExporter? and include it in …
9:12 AM Ticket #1243 (Fix TestBioAssaySetExporter and include it in TestAll) created by Nicklas Nordborg
I just found out that the TestBioAssaySetExporter? is not included in …

Feb 24, 2009:

12:57 PM Ticket #1242 (Generate <img> tag for spot images with a class attribute) created by jari
Greetings! I'm using base-2.9.2 on tomcat 6.0.18 in Geronimo 2.1.3. …
12:50 PM Ticket #1239 (Units for concentrations) closed by jari
invalid: Of course. Somehow I missed density!
11:33 AM Ticket #1241 (Implement "lazy loading" of the directory tree) created by Nicklas Nordborg
On a server with lots of user's the file manager is almost impossible …
11:30 AM Ticket #1240 (Implement "lazy loading" in the generic "item overview") created by Nicklas Nordborg
This means that a sub-tree should not be loaded until a user opens the …
11:22 AM Ticket #1239 (Units for concentrations) created by jari
I think we should add a quantity/unit type for concentrations. I …
11:19 AM Ticket #1238 (Check performance of BioAssaySetExporter) created by Nicklas Nordborg
This is slightly related to #1237 and may be caused by the same thing …
11:17 AM Ticket #1237 (BioAssaySetExporter should attach generated files to the bioassayset) created by Nicklas Nordborg
The main reason is that we want to change the MeV launcher so that it …
11:09 AM Milestone BASE 2.10 completed
The focus in this release will be to enhance the biomaterial section …
11:07 AM Changeset [4789] by Nicklas Nordborg
Merged pre-2.10-releases to the trunk.
10:01 AM DownloadPage edited by Nicklas Nordborg
Releasing BASE 2.10 (diff)
9:56 AM Changeset [4788] by Nicklas Nordborg
Changes for future release 2.10.1
9:42 AM Changeset [4787] by Nicklas Nordborg
Tagging version 2.10
9:40 AM Changeset [4786] by Nicklas Nordborg
References #1193: Generic tree-like item overview Fixed javadoc that …
9:36 AM Changeset [4785] by Nicklas Nordborg
Preparing release 2.10
8:23 AM Ticket #1190 (API and interface for creating biomaterial lists) closed by Nicklas Nordborg
fixed
8:22 AM Ticket #1175 (Biomaterial lists) closed by Nicklas Nordborg
fixed

Feb 23, 2009:

4:16 PM Ticket #1234 (Read the bioplate section in biomaterial) closed by jari
fixed: (In [4784]) Fixes #1234.
4:16 PM Changeset [4784] by jari
Fixes #1234.
2:54 PM Changeset [4783] by Nicklas Nordborg
Updated 'roles' test instructions to make them compatible with the …
1:56 PM Changeset [4782] by Nicklas Nordborg
Remove debug alert message.
1:41 PM Changeset [4781] by Nicklas Nordborg
References #979: Biomaterial LIMS Made 'ok' and 'cancel' buttons …
1:40 PM Changeset [4780] by Nicklas Nordborg
Updated the 'roles' test program and instructions.
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