Timeline



Jan 2, 2008:

3:04 PM Ticket #879 (Add column holding the filename of last file used for updating ...) updated by Martin Svensson
Status, Owner changed

Dec 24, 2007:

10:39 PM ReleaseProcedure edited by Peter Johansson
updating link to svndigest (diff)

Dec 20, 2007:

2:47 PM Changeset [4073] by Nicklas Nordborg
References #636: Kill a running job Infrastructure for signal …
2:47 PM Ticket #636 (Kill a running job) updated by Nicklas Nordborg
(In [4073]) References #636: Kill a running job Infrastructure for …

Dec 19, 2007:

4:10 PM Changeset [4072] by Martin Svensson
Fixes #762 Provide operators 'In' and 'Not in' when filtering a list
4:10 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) closed by Martin Svensson
fixed: (In [4072]) Fixes #762 Provide operators 'In' and 'Not in' when …
2:58 PM Ticket #636 (Kill a running job) updated by Nicklas Nordborg
Status, Milestone changed
I'll start with this now. We had some discussions around the coffe …
2:02 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Martin Svensson
(In [4071]) References #762 The functionality is now completely …
2:02 PM Changeset [4071] by Martin Svensson
References #762 The functionality is now completely implemented. It …
1:52 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Martin Svensson
Status, Owner changed
9:42 AM Ticket #636 (Kill a running job) updated by Nicklas Nordborg
Description changed

Dec 18, 2007:

11:31 AM Changeset [4070] by Nicklas Nordborg
Fixes #790: Job slot status information on job agent view
11:31 AM Ticket #790 (Job slot status information on job agent view) closed by Nicklas Nordborg
fixed: (In [4070]) Fixes #790: Job slot status information on job agent view
10:56 AM Ticket #790 (Job slot status information on job agent view) updated by Nicklas Nordborg
Priority, Status, Owner, Component, Milestone changed

Dec 17, 2007:

11:11 AM Ticket #886 (Make sure that plug-in and web services examples can be downloaded ...) created by Nicklas Nordborg
The current links are pointing to a temporary location. The packages …
11:05 AM DeveloperInformation edited by Nicklas Nordborg
Added links to packages with example code (diff)
9:05 AM Changeset [4069] by Nicklas Nordborg
References #880: Corrected @since annotation (=2.6)
9:05 AM Ticket #880 (Exclude reporters in Lowess) updated by Nicklas Nordborg
(In [4069]) References #880: Corrected @since annotation (=2.6)
9:02 AM Ticket #880 (Exclude reporters in Lowess) closed by Nicklas Nordborg
fixed: (In [4068]) Fixes #880: Exclude reporters in Lowess
9:02 AM Changeset [4068] by Nicklas Nordborg
Fixes #880: Exclude reporters in Lowess
7:47 AM Ticket #880 (Exclude reporters in Lowess) updated by Nicklas Nordborg
Status, Owner changed

Dec 14, 2007:

4:48 PM Changeset [4067] by Martin Svensson
References #762 Updated PropertyFilter class to use the new operators.
4:48 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Martin Svensson
(In [4067]) References #762 Updated PropertyFilter class to use the …
4:05 PM Changeset [4066] by Johan Enell
Fixes #885
4:05 PM Ticket #885 (Base1PluginExecuter has to short string input field) closed by Johan Enell
fixed: (In [4066]) Fixes #885
3:44 PM Ticket #885 (Base1PluginExecuter has to short string input field) updated by Johan Enell
Status, Milestone changed
3:44 PM Ticket #884 (Base1PluginExecuter has to short string input field) closed by Johan Enell
duplicate: dupicate #885
3:37 PM Ticket #884 (Base1PluginExecuter has to short string input field) created by Johan Enell
The string input field for jobparameters is set to default 255 but …
3:37 PM Ticket #885 (Base1PluginExecuter has to short string input field) created by Johan Enell
The string input field for jobparameters is set to default 255 but …
2:50 PM Ticket #880 (Exclude reporters in Lowess) updated by Nicklas Nordborg
In practical terms this means: * We need a boolean flag on the …
2:34 PM Changeset [4065] by Nicklas Nordborg
Fixes #870 and #883: Overview plots and correction factor plots should …
2:34 PM Tickets #883,​870 batch updated by Nicklas Nordborg
fixed: (In [4065]) Fixes #870 and #883: Overview plots and correction factor …
2:33 PM Ticket #883 (Overview plots and correction factor plots should be loaded one by one) created by Nicklas Nordborg
For background info, see #870: OutOfMemory when creating correction …
2:31 PM Changeset [4064] by Nicklas Nordborg
Fixes #882: list_annotations.jsp has an extra </div> tag with no …
2:31 PM Ticket #882 (list_annotations.jsp has an extra </div> tag with no corresponding ...) closed by Nicklas Nordborg
fixed: (In [4064]) Fixes #882: list_annotations.jsp has an extra </div> tag …
2:31 PM Ticket #882 (list_annotations.jsp has an extra </div> tag with no corresponding ...) created by Nicklas Nordborg
2:30 PM Changeset [4063] by Nicklas Nordborg
Fixes #881: Page taglib with type="include" generates </html> tag
2:30 PM Ticket #881 (Page taglib with type="include" generates </html> tag) closed by Nicklas Nordborg
fixed: (In [4063]) Fixes #881: Page taglib with type="include" generates …
2:30 PM Ticket #881 (Page taglib with type="include" generates </html> tag) updated by Nicklas Nordborg
Status, Summary, Owner changed
2:26 PM Ticket #881 (Page taglib with type="include" generates </html> tag) created by Nicklas Nordborg
It is used for page parts which are included inside other pages. Thus …
1:51 PM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Nicklas Nordborg
Status changed
1:12 PM Ticket #880 (Exclude reporters in Lowess) created by Johan Enell
New parameter in Lowess: exclude reporters The user chooses a …
12:19 PM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Nicklas Nordborg
It seems like browsers today have a rather high number for 'max …
12:12 PM Changeset [4062] by Nicklas Nordborg
Fixes #837: Lowess plugin. Error: Sum of weigths in line_fit is not …
12:12 PM Ticket #837 (Lowess plugin. Error: Sum of weigths in line_fit is not positive) closed by Nicklas Nordborg
fixed: (In [4062]) Fixes #837: Lowess plugin. Error: Sum of weigths in …
12:09 PM Changeset [4061] by Nicklas Nordborg
Fixes #838: Change default value of Blockgroup size to 0 in Lowess
12:09 PM Ticket #838 (Change default value of Blockgroup size to 0 in Lowess) closed by Nicklas Nordborg
fixed: (In [4061]) Fixes #838: Change default value of Blockgroup size to 0 …
12:02 PM Ticket #879 (Add column holding the filename of last file used for updating ...) updated by Nicklas Nordborg
Description changed
12:00 PM Ticket #879 (Add column holding the filename of last file used for updating ...) updated by Nicklas Nordborg
Description changed
11:59 AM Ticket #879 (Add column holding the filename of last file used for updating ...) created by Nicklas Nordborg
This is to simple let everyone know where the annotations are coming …
11:37 AM Ticket #838 (Change default value of Blockgroup size to 0 in Lowess) updated by Nicklas Nordborg
Owner, Status changed
10:58 AM Changeset [4060] by Nicklas Nordborg
Fixes #878: Exporting files as a compressed archive may throw an …
10:58 AM Ticket #878 (Exporting files as a compressed archive may throw an exception if done ...) closed by Nicklas Nordborg
fixed: (In [4060]) Fixes #878: Exporting files as a compressed archive may …
10:00 AM Ticket #878 (Exporting files as a compressed archive may throw an exception if done ...) updated by Nicklas Nordborg
Status changed
10:00 AM Ticket #878 (Exporting files as a compressed archive may throw an exception if done ...) created by Nicklas Nordborg
Here is the stacktrace: […] This happens because the path up to …
9:55 AM Changeset [4059] by Nicklas Nordborg
Fixes #749: TAR files with long files names are not supported
9:55 AM Ticket #749 (TAR files with long files names are not supported) closed by Nicklas Nordborg
fixed: (In [4059]) Fixes #749: TAR files with long files names are not supported
8:13 AM Ticket #749 (TAR files with long files names are not supported) updated by Nicklas Nordborg
Milestone, Owner, Status changed
It seems like commons-compress is not making any progress at all. I'll …

Dec 13, 2007:

3:19 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Martin Svensson
(In [4058]) References #762 Added four new Operators and started to …
3:19 PM Changeset [4058] by Martin Svensson
References #762 Added four new Operators and started to implement them …
1:45 PM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) closed by Nicklas Nordborg
fixed: (In [4057]) Fixes #771: Make annotations for Bioassays available in …
1:45 PM Changeset [4057] by Nicklas Nordborg
Fixes #771: Make annotations for Bioassays available in bioassay table …
11:38 AM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Nicklas Nordborg
Status changed
11:38 AM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Nicklas Nordborg
Owner, Status changed
11:28 AM Ticket #771 (Make annotations for Bioassays available in bioassay table within a ...) updated by Nicklas Nordborg
Component, Priority, Milestone changed
I'll fix this so that experimental factor annotations can be displayed …

Dec 12, 2007:

4:09 PM Ticket #875 (Create Illumina SNP raw data type) updated by Martin Svensson
Owner, Status changed
3:01 PM Ticket #874 (Plugin to create array designs from an Illumina bgx-file.) updated by Nicklas Nordborg
Priority changed
3:01 PM Ticket #875 (Create Illumina SNP raw data type) updated by Nicklas Nordborg
Priority changed
3:00 PM Ticket #868 (Support for chips with multiple arrays) updated by Nicklas Nordborg
Priority changed
3:00 PM Ticket #868 (Support for chips with multiple arrays) updated by Nicklas Nordborg
Summary, Description, Priority changed
2:58 PM Ticket #867 (Support for array designs without coordinate/position information for ...) updated by Nicklas Nordborg
Priority changed
2:58 PM Ticket #837 (Lowess plugin. Error: Sum of weigths in line_fit is not positive) updated by Nicklas Nordborg
Priority changed
2:57 PM Ticket #762 (Provide operators 'In' and 'Not in' when filtering a list) updated by Nicklas Nordborg
Priority changed
2:57 PM Ticket #639 (exportPureMatrix method) updated by Nicklas Nordborg
Priority changed
2:54 PM Ticket #875 (Create Illumina SNP raw data type) updated by Nicklas Nordborg
Summary changed
2:41 PM Ticket #874 (Plugin to create array designs from an Illumina bgx-file.) updated by Johan Enell
Description changed
2:40 PM Ticket #877 (Illumina SNP validator and meta-data extractor) created by Johan Enell
The data files hsould be validated automagically and some data such as …
2:37 PM Ticket #875 (Create Illumina SNP raw data type) updated by Johan Enell
Summary changed
2:36 PM Ticket #874 (Plugin to create array designs from an Illumina bgx-file.) updated by Johan Enell
Description changed
2:34 PM Ticket #876 (Illumina plug-ins: Illumina expression raw data types comes from 2 sources) updated by Johan Enell
Description changed
2:34 PM Ticket #876 (Illumina plug-ins: Illumina expression raw data types comes from 2 sources) created by Johan Enell
Illumina data is exported from the scanner or BeadStudio. The two …
2:29 PM Ticket #875 (Create Illumina SNP raw data type) created by Johan Enell
Needed for SNP data from the Illumina platform. The raw files are to …
2:24 PM Ticket #874 (Plugin to create array designs from an Illumina bgx-file.) created by Johan Enell
The plug-in needs a validator and meta-data extractor. Depends on …
2:22 PM Ticket #841 (Investigate BASE support for uploading files >2GB) updated by Johan Enell
Milestone changed
2:21 PM Ticket #837 (Lowess plugin. Error: Sum of weigths in line_fit is not positive) updated by Johan Enell
Milestone changed
A more informative printout is needed explaining why the normalization …
2:14 PM Ticket #834 (Trashcan cannot be emptied) updated by Johan Enell
Milestone changed
2:09 PM Ticket #639 (exportPureMatrix method) updated by Johan Enell
Milestone changed
2:06 PM Ticket #791 (Plug-in execution time estimates) updated by Johan Enell
Milestone changed
2:05 PM Ticket #790 (Job slot status information on job agent view) updated by Johan Enell
Milestone changed
2:04 PM Ticket #742 (Refactor BioAssaySetExporter) updated by Johan Enell
Milestone changed
2:04 PM Ticket #741 (Refactor Base1PluginExecuter) updated by Johan Enell
Milestone changed
2:04 PM Ticket #738 (Implement file upload as a pure servlet) updated by Johan Enell
Milestone, Status, Owner changed
2:03 PM Ticket #636 (Kill a running job) updated by Johan Enell
Milestone changed
2:03 PM Ticket #621 (Write 'Plate' section) updated by Johan Enell
Milestone changed
2:02 PM Ticket #617 (Write plate management in array LIMS) updated by Johan Enell
Milestone changed
2:02 PM Ticket #597 (Read "Appendix: web.xml reference") updated by Johan Enell
Milestone changed
2:02 PM Ticket #585 (Make the BASE file system pluggable) updated by Johan Enell
Milestone changed
1:59 PM Ticket #436 (Create extension system for the web application) updated by Johan Enell
Milestone changed
1:57 PM Ticket #866 (Performance testing creating root Bioassay set) closed by Johan Enell
wontfix
9:35 AM Changeset [4056] by Nicklas Nordborg
Fixes #873: AbstractFlatFileImporter should use number of parsed bytes …
9:35 AM Ticket #873 (AbstractFlatFileImporter should use number of parsed bytes for ...) closed by Nicklas Nordborg
fixed: (In [4056]) Fixes #873: AbstractFlatFileImporter should use number of …
9:23 AM Ticket #873 (AbstractFlatFileImporter should use number of parsed bytes for ...) updated by Nicklas Nordborg
Summary changed
9:23 AM Ticket #873 (AbstractFlatFileImporter should use number of parsed bytes for ...) updated by Nicklas Nordborg
Status, Owner changed
9:23 AM Ticket #873 (AbstractFlatFileImporter should use number of parsed bytes for ...) created by Nicklas Nordborg
It currently uses the number of parsed characters, which may be …
9:20 AM Ticket #800 (Make the Illumina importer accept tab as data delimiter and comma as ...) closed by Nicklas Nordborg
fixed: (In [4055]) Fixes #800: Make the Illumina importer accept tab as data …
9:20 AM Changeset [4055] by Nicklas Nordborg
Fixes #800: Make the Illumina importer accept tab as data delimiter …

Dec 11, 2007:

1:27 PM Ticket #738 (Implement file upload as a pure servlet) updated by Martin Svensson
Status, Owner changed
11:51 AM Ticket #865 (Progress reporter implementation should detect and handle negative ...) closed by Martin Svensson
fixed: (In [4054]) Fixes #865 Progress reporter implementation should detect …
11:51 AM Changeset [4054] by Martin Svensson
Fixes #865 Progress reporter implementation should detect and handle …
11:37 AM Ticket #800 (Make the Illumina importer accept tab as data delimiter and comma as ...) updated by Nicklas Nordborg
Summary, Milestone, Owner, Status changed
Ok, I just got this confirmed by other users. They also report that …
9:25 AM Ticket #867 (Support for array designs without coordinate/position information for ...) updated by Nicklas Nordborg
I have been thinking a bit about how to do this. Here is a first …

Dec 10, 2007:

3:50 PM Ticket #800 (Make the Illumina importer accept tab as data delimiter and comma as ...) updated by base
Sorry I forgot about this post for some time. I was somewhat unclear …
3:44 PM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Johan Enell
There is no activity in the server. I'm the only one that is logged …
2:47 PM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Nicklas Nordborg
Hmm... afterwards there is still 300MB that is used by something else. …
2:14 PM Ticket #867 (Support for array designs without coordinate/position information for ...) updated by Nicklas Nordborg
Owner, Status changed
1:39 PM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Johan Enell
This is the memory load. When I try to load the about page during the …
11:56 AM Changeset [4053] by Nicklas Nordborg
Fixes #872: Auto-compression based on file extension should not be …
11:56 AM Ticket #872 (Auto-compression based on file extension should not be case sensitive) closed by Nicklas Nordborg
fixed: (In [4053]) Fixes #872: Auto-compression based on file extension …
11:43 AM Changeset [4052] by Nicklas Nordborg
Fixes #871: 'Roles' test program should use *.tar.bz2 files instead of …
11:43 AM Ticket #871 ('Roles' test program should use *.tar.bz2 files instead of *.bz2) closed by Nicklas Nordborg
fixed: (In [4052]) Fixes #871: 'Roles' test program should use *.tar.bz2 …
11:42 AM Ticket #872 (Auto-compression based on file extension should not be case sensitive) created by Nicklas Nordborg
This depends on the database engine since the extension matching is …
11:36 AM Ticket #408 (Implement FTP server) updated by Nicklas Nordborg
The Apache team is working on a new FTP server software. It seems …
11:16 AM Ticket #871 ('Roles' test program should use *.tar.bz2 files instead of *.bz2) updated by Nicklas Nordborg
Status, Owner changed
11:16 AM Ticket #871 ('Roles' test program should use *.tar.bz2 files instead of *.bz2) created by Nicklas Nordborg
The testdata for the 'roles' test program has used *.bz2 files. The …
10:01 AM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Nicklas Nordborg
Can't find any explicit calls to System.gc() from JFreeChart.
9:19 AM Ticket #870 (OutOfMemory when creating correction factor plot) updated by Nicklas Nordborg
This can have other causes than actually being out of memory. The …
8:50 AM Ticket #869 (Upload + unpack of compressed file may corrupt data) updated by Nicklas Nordborg
I want to add some more information about how I solved this bug. It …
8:22 AM Ticket #869 (Upload + unpack of compressed file may corrupt data) closed by Nicklas Nordborg
fixed: (In [4051]) Fixes #869: Upload + unpack of compressed file may corrupt data
8:22 AM Changeset [4051] by Nicklas Nordborg
Fixes #869: Upload + unpack of compressed file may corrupt data
7:55 AM Ticket #869 (Upload + unpack of compressed file may corrupt data) updated by Nicklas Nordborg
After tons of debug output I think I have narrowed it down to the …
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