Timeline



Apr 30, 2008:

12:40 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4264]) References #436: Create extension system for the web …
12:40 PM Changeset [4264] by Nicklas Nordborg
References #436: Create extension system for the web application …
12:39 PM Changeset [4263] by Nicklas Nordborg
References #933: Create extension points for some selected places in …
12:39 PM Ticket #933 (Create extension points for some selected places in the web client) updated by Nicklas Nordborg
(In [4263]) References #933: Create extension points for some selected …
9:54 AM Ticket #933 (Create extension points for some selected places in the web client) updated by Nicklas Nordborg
(In [4262]) References #933: Create extension points for some selected …
9:54 AM Changeset [4262] by Nicklas Nordborg
References #933: Create extension points for some selected places in …
9:07 AM Ticket #933 (Create extension points for some selected places in the web client) updated by Nicklas Nordborg
Status, Owner changed
Hmm... not much response on this one. I'll close this ticket after …

Apr 29, 2008:

1:58 PM Ticket #1009 (Link from array design to job that imported the features) closed by Nicklas Nordborg
fixed: (In [4261]) Fixes #1009: Link from array design to job that imported …
1:58 PM Changeset [4261] by Nicklas Nordborg
Fixes #1009: Link from array design to job that imported the features
1:58 PM Changeset [4260] by Nicklas Nordborg
References #974. Don't display import information for file-only data sets
1:58 PM Ticket #974 (Link from raw bioassay to job that imported the raw data) updated by Nicklas Nordborg
(In [4260]) References #974. Don't display import information for …
1:47 PM Changeset [4259] by Nicklas Nordborg
References #974. Changed label on 'import date' column
1:47 PM Ticket #974 (Link from raw bioassay to job that imported the raw data) updated by Nicklas Nordborg
(In [4259]) References #974. Changed label on 'import date' column
1:42 PM Changeset [4258] by Nicklas Nordborg
Fixes #974: Link from raw bioassay to job that imported the raw data
1:42 PM Ticket #974 (Link from raw bioassay to job that imported the raw data) closed by Nicklas Nordborg
fixed: (In [4258]) Fixes #974: Link from raw bioassay to job that imported …
12:59 PM Changeset [4257] by Nicklas Nordborg
References #1009: Link from array design to job that imported the …
12:59 PM Ticket #1009 (Link from array design to job that imported the features) updated by Nicklas Nordborg
(In [4257]) References #1009: Link from array design to job that …
11:39 AM Ticket #1009 (Link from array design to job that imported the features) updated by Nicklas Nordborg
Status changed
11:39 AM Changeset [4256] by Nicklas Nordborg
References #974: Link from raw bioassay to job that imported the raw …
11:39 AM Ticket #974 (Link from raw bioassay to job that imported the raw data) updated by Nicklas Nordborg
(In [4256]) References #974: Link from raw bioassay to job that …
8:26 AM Ticket #1009 (Link from array design to job that imported the features) created by Nicklas Nordborg
This is the same thing for array designs as #974 is for raw bioassays
8:08 AM Ticket #974 (Link from raw bioassay to job that imported the raw data) updated by Nicklas Nordborg
Owner, Summary, Status changed
8:06 AM Ticket #1007 (Add reference to the Illumina plugin in BASE doc Appendix B) updated by Nicklas Nordborg
There is already a link to the BASE plug-ins site in the start of that …

Apr 28, 2008:

11:16 PM Ticket #1008 (Error in API doc for class `SpotExtraValueBatcher<I>`) created by Jari Häkkinen
In javadoc section for Class SpotExtraValueBatcher<I> there should …
8:29 PM Ticket #1007 (Add reference to the Illumina plugin in BASE doc Appendix B) created by Jari Häkkinen
The listing of core plugins should reference to baseplugins.thep.lu.se …
3:44 PM Changeset [4255] by Jari Häkkinen
Typo.
3:00 PM Changeset [4254] by Nicklas Nordborg
Fixes #972: Assign job to experiment when the job is created The …
3:00 PM Ticket #972 (Assign job to experiment when the job is created) closed by Nicklas Nordborg
fixed: (In [4254]) Fixes #972: Assign job to experiment when the job is …
2:05 PM Ticket #972 (Assign job to experiment when the job is created) updated by Nicklas Nordborg
Owner, Status, Summary changed
12:25 PM Changeset [4253] by Nicklas Nordborg
Undo changes made in [4250] to this file. The code was related to …
12:19 PM Ticket #1006 (Make it possible to search for missing annotations) updated by Nicklas Nordborg
Summary changed
12:19 PM Ticket #1006 (Make it possible to search for missing annotations) closed by Nicklas Nordborg
fixed: (In [4252]) Fixes #1006: Make it possible to search for missing annotations
12:19 PM Changeset [4252] by Nicklas Nordborg
Fixes #1006: Make it possible to search for missing annotations
11:47 AM Ticket #1006 (Make it possible to search for missing annotations) updated by Nicklas Nordborg
Status, Owner changed
10:55 AM Ticket #1006 (Make it possible to search for missing annotations) updated by Nicklas Nordborg
Summary changed
10:54 AM Ticket #1006 (Make it possible to search for missing annotations) created by Nicklas Nordborg
There is an issue that manifests itself when filtering lists of items …
10:48 AM Changeset [4251] by Nicklas Nordborg
Fixes #965: Filtering the list – selection list vs. input box for …
10:48 AM Ticket #965 (Filtering the list – selection list vs. input box for enumeration type ...) closed by Nicklas Nordborg
fixed: (In [4251]) Fixes #965: Filtering the list ?\226?\128?\147 selection …

Apr 25, 2008:

3:41 PM Ticket #965 (Filtering the list – selection list vs. input box for enumeration type ...) updated by Nicklas Nordborg
(In [4250]) References #965: Filtering the list ?\226?\128?\147 …
3:41 PM Changeset [4250] by Nicklas Nordborg
References #965: Filtering the list – selection list vs. input box for …

Apr 24, 2008:

2:00 PM Ticket #965 (Filtering the list – selection list vs. input box for enumeration type ...) updated by Nicklas Nordborg
Status, Owner changed
1:30 PM Changeset [4249] by Nicklas Nordborg
Fixes #1005: Test programs should print out server information just …
1:30 PM Ticket #1005 (Test programs should print out server information just like the initdb ...) closed by Nicklas Nordborg
fixed: (In [4249]) Fixes #1005: Test programs should print out server …
1:08 PM Changeset [4248] by Nicklas Nordborg
Fixes #1004: Upgrade Postgres JDBC driver to 8.3.603
1:08 PM Ticket #1004 (Upgrade Postgres JDBC driver to 8.3.603) closed by Nicklas Nordborg
fixed: (In [4248]) Fixes #1004: Upgrade Postgres JDBC driver to 8.3.603
1:07 PM Ticket #1005 (Test programs should print out server information just like the initdb ...) created by Nicklas Nordborg
This is very useful to know and make sure that the test programs run …
12:55 PM Ticket #1004 (Upgrade Postgres JDBC driver to 8.3.603) updated by Nicklas Nordborg
Status, Owner changed
12:55 PM Changeset [4247] by Nicklas Nordborg
Fixes #1003: Illumina raw data importer – Enhance feature mismatch …
12:55 PM Ticket #1003 (Illumina raw data importer – Enhance feature mismatch error handling) closed by Nicklas Nordborg
fixed: (In [4247]) Fixes #1003: Illumina raw data importer ?\226?\128?\147 …
12:11 PM Ticket #1004 (Upgrade Postgres JDBC driver to 8.3.603) created by Nicklas Nordborg
We currently have 8.2.506. The documentation on their web page …
11:39 AM Ticket #1003 (Illumina raw data importer – Enhance feature mismatch error handling) updated by Nicklas Nordborg
Status changed
11:39 AM Changeset [4246] by Nicklas Nordborg
Fixes #968: Raw data importer – Enhance feature mismatch error handling
11:39 AM Ticket #968 (Raw data importer – Enhance feature mismatch error handling) closed by Nicklas Nordborg
fixed: (In [4246]) Fixes #968: Raw data importer ?\226?\128?\147 Enhance …
10:48 AM Ticket #1003 (Illumina raw data importer – Enhance feature mismatch error handling) created by Nicklas Nordborg
Do the same things with this importer as for the flat file raw data …
8:03 AM Ticket #968 (Raw data importer – Enhance feature mismatch error handling) updated by Nicklas Nordborg
Status, Owner changed
8:00 AM Changeset [4245] by Nicklas Nordborg
Fixes #1002: Possible PermissionDeniedException when listing …
8:00 AM Ticket #1002 (Possible PermissionDeniedException when listing rawbioassay through ...) closed by Nicklas Nordborg
fixed: (In [4245]) Fixes #1002: Possible PermissionDeniedException when …
7:54 AM Ticket #1002 (Possible PermissionDeniedException when listing rawbioassay through ...) updated by Nicklas Nordborg
Status changed
The problem is the RawBioAssay.toTransferable() method, which just …
7:50 AM Ticket #965 (Filtering the list – selection list vs. input box for enumeration type ...) updated by Nicklas Nordborg
Milestone changed
7:48 AM Ticket #974 (Link from raw bioassay to job that imported the raw data) updated by Nicklas Nordborg
Milestone changed
7:48 AM Ticket #972 (Assign job to experiment when the job is created) updated by Nicklas Nordborg
Milestone changed
7:45 AM Ticket #968 (Raw data importer – Enhance feature mismatch error handling) updated by Nicklas Nordborg
Milestone changed
7:44 AM Ticket #1002 (Possible PermissionDeniedException when listing rawbioassay through ...) created by Nicklas Nordborg
This happens if one of the raw bioassays the user has access to is …

Apr 23, 2008:

3:04 PM Changeset [4244] by Nicklas Nordborg
Fixes #993: Paste multiple barcodes in the Multiple slides wizard
3:04 PM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) closed by Nicklas Nordborg
fixed: (In [4244]) Fixes #993: Paste multiple barcodes in the Multiple slides …
1:55 PM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) updated by Nicklas Nordborg
Status, Owner changed
1:51 PM Changeset [4243] by Nicklas Nordborg
Fixes #920: Add support for aborting queries using a StatlessSession
1:51 PM Ticket #920 (Add support for aborting queries using a StatlessSession) closed by Nicklas Nordborg
fixed: (In [4243]) Fixes #920: Add support for aborting queries using a …
1:50 PM Ticket #1001 (Plug-ins that use the 'execute immediately' option can't be aborted) created by Nicklas Nordborg
This is true for all plug-ins even those that implements the …
1:44 PM Changeset [4242] by Nicklas Nordborg
Fixes #1000: SimpleExport count items twice
1:44 PM Ticket #1000 (SimpleExport count items twice) closed by Nicklas Nordborg
fixed: (In [4242]) Fixes #1000: SimpleExport count items twice
1:40 PM Ticket #1000 (SimpleExport count items twice) created by Nicklas Nordborg
The SimpleExport is the plug-in that is used for all table-like …
9:38 AM Ticket #920 (Add support for aborting queries using a StatlessSession) updated by Nicklas Nordborg
Status, Owner, Milestone changed
The StatlessSessionImpl has public methods that we can use to cancel …

Apr 22, 2008:

2:07 PM Changeset [4241] by Nicklas Nordborg
Fixes #994: Create GAL export plug-in for array designs
2:07 PM Ticket #994 (Create GAL export plug-in for array designs) closed by Nicklas Nordborg
fixed: (In [4241]) Fixes #994: Create GAL export plug-in for array designs
2:06 PM Changeset [4240] by Nicklas Nordborg
Fixes #999: PrintMapImporter should import feature diameter from TAM …
2:06 PM Ticket #999 (PrintMapImporter should import feature diameter from TAM and MWBR files) closed by Nicklas Nordborg
fixed: (In [4240]) Fixes #999: PrintMapImporter should import feature …
11:49 AM Ticket #999 (PrintMapImporter should import feature diameter from TAM and MWBR files) updated by Nicklas Nordborg
Status, Owner changed
11:48 AM Changeset [4239] by Nicklas Nordborg
References #994: Create GAL export plug-in for array designs Added …
11:48 AM Ticket #994 (Create GAL export plug-in for array designs) updated by Nicklas Nordborg
(In [4239]) References #994: Create GAL export plug-in for array …
11:47 AM Ticket #994 (Create GAL export plug-in for array designs) updated by Nicklas Nordborg
Summary, Type changed
11:36 AM Ticket #999 (PrintMapImporter should import feature diameter from TAM and MWBR files) created by Nicklas Nordborg
We need a new column in the ArrayDesignBlock table for this. The …

Apr 21, 2008:

10:50 AM Ticket #994 (Create GAL export plug-in for array designs) updated by Nicklas Nordborg
Status, Owner changed
10:50 AM Ticket #989 (Add support for using extension classes in custom JSP pages) closed by Nicklas Nordborg
fixed
10:50 AM Ticket #988 (Add support for servlets in extensions) closed by Nicklas Nordborg
fixed
10:49 AM Ticket #436 (Create extension system for the web application) closed by Nicklas Nordborg
fixed
10:00 AM Changeset [4238] by Nicklas Nordborg
Fixes #998: Decimal numbers may be incorrectly rounded
10:00 AM Ticket #998 (Decimal numbers may be incorrectly rounded) closed by Nicklas Nordborg
fixed: (In [4238]) Fixes #998: Decimal numbers may be incorrectly rounded
9:27 AM Ticket #998 (Decimal numbers may be incorrectly rounded) updated by Nicklas Nordborg
Milestone, Priority, Summary changed
I don't think this problem is related to the ordering. It is more …

Apr 19, 2008:

3:27 PM Bioassay_Spot_Data_Sort_ch1.jpg attached to Ticket #998 by Johan Vallon-Christersson
3:26 PM Ticket #998 (Decimal numbers may be incorrectly rounded) created by Johan Vallon-Christersson
Numbers are not sorted correctly. Bioassay, Spots data, Sort Ch1. …

Apr 18, 2008:

2:41 PM Ticket #997 (Read and update installation/upgrade instructions) created by Nicklas Nordborg
The installation and upgrade instructions are becoming a bit old. We …
2:36 PM Ticket #99 (java.lang.NoSuchMethodError: getHibernateLazyInitializer) updated by Nicklas Nordborg
It seems like this issue was fixed in Hibernate 3.2.3. BASE 2.4 …
2:09 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4237]) References #436: Create extension system for the web …
2:08 PM Changeset [4237] by Nicklas Nordborg
References #436: Create extension system for the web application …
1:06 PM Changeset [4236] by Nicklas Nordborg
References #436: Create extension system for the web application …
1:06 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4236]) References #436: Create extension system for the web …
11:51 AM Changeset [4235] by Nicklas Nordborg
Fixes #996: MEV can't open data files that has a missing value in the …
11:51 AM Ticket #996 (MEV can't open data files that has a missing value in the last column) closed by Nicklas Nordborg
fixed: (In [4235]) Fixes #996: MEV can't open data files that has a missing …
11:31 AM Ticket #932 (Convert the MeV launcher to an extension) closed by Nicklas Nordborg
fixed: (In [4234]) Fixes #932: Convert the MeV launcher to an extension …
11:31 AM Changeset [4234] by Nicklas Nordborg
Fixes #932: Convert the MeV launcher to an extension MEV-related code …
11:16 AM Ticket #996 (MEV can't open data files that has a missing value in the last column) created by Nicklas Nordborg
The BioAssaySetExporter can export data in MEV format. The export …

Apr 17, 2008:

3:05 PM Changeset [4233] by Nicklas Nordborg
References #436: Create extension system for the web application …
3:05 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4233]) References #436: Create extension system for the web …
2:25 PM Ticket #995 (Add link to closed tickets for each milestone on DownloadPage) closed by Nicklas Nordborg
fixed
2:25 PM DownloadPage edited by Nicklas Nordborg
Fixes #995 (diff)
2:14 PM Ticket #995 (Add link to closed tickets for each milestone on DownloadPage) updated by Nicklas Nordborg
Owner, Status changed
2:06 PM Changeset [4232] by Nicklas Nordborg
Merged patch release 2.6.2 to the trunk. Delta 2.6.2 - 2.6.1
1:53 PM Ticket #995 (Add link to closed tickets for each milestone on DownloadPage) created by Nicklas Nordborg
It is a bit difficult to get to know what has been fixed for each …
1:38 PM Milestone BASE 2.6.2 completed
Bug fixes for 2.6.1. Revision log: log:branches/2.6-stable@4191:4230
1:37 PM DownloadPage edited by Nicklas Nordborg
Releasing 2.6.2 (diff)
1:31 PM Changeset [4231] by Nicklas Nordborg
Changes for future release 2.6.3
1:19 PM Changeset [4230] by Nicklas Nordborg
Tagging version 2.6.2
1:19 PM Changeset [4229] by Nicklas Nordborg
Preparing release 2.6.2
1:18 PM Ticket #957 (Base1PluginExecuter doesn't import plug-in generated BASEfiles as expected) updated by Nicklas Nordborg
(In [4228]) References #957: Base1PluginExecuter doesn't import …
1:18 PM Changeset [4228] by Nicklas Nordborg
References #957: Base1PluginExecuter doesn't import plug-in generated …
12:30 PM Tickets #990,​991 batch updated by Nicklas Nordborg
fixed: (In [4227]) Fixes #990 and #991: Change default create date... and …
12:30 PM Changeset [4227] by Nicklas Nordborg
Fixes #990 and #991: Change default create date... and Created date - …
12:21 PM Ticket #990 (Change default create date for samples (and other items).) updated by Nicklas Nordborg
Milestone, Status, Owner changed
Fixing #991 will fix this as well.
12:17 PM Changeset [4226] by Nicklas Nordborg
Fixes #961: Expand the maximum number of characters accepted by filter …
12:17 PM Ticket #961 (Expand the maximum number of characters accepted by filter input box) closed by Nicklas Nordborg
fixed: (In [4226]) Fixes #961: Expand the maximum number of characters …
12:16 PM Ticket #961 (Expand the maximum number of characters accepted by filter input box) updated by Nicklas Nordborg
Summary changed
The value should be taken from the max length allowed in the database …
12:03 PM Ticket #991 (Created date - auto changed from blank when edit sample) updated by Nicklas Nordborg
Status, Owner, Milestone changed
12:02 PM Ticket #961 (Expand the maximum number of characters accepted by filter input box) updated by Nicklas Nordborg
Owner, Milestone, Type, Status changed
12:01 PM Ticket #994 (Create GAL export plug-in for array designs) updated by Nicklas Nordborg
Milestone, Priority changed
12:01 PM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) updated by Nicklas Nordborg
Milestone changed

Apr 16, 2008:

4:26 PM Ticket #994 (Create GAL export plug-in for array designs) updated by Johan Vallon-Christersson
Replying to base: > What's wrong with just downloading the …
2:29 PM Ticket #992 (Regular expressions with backslashes trigger "Not allowed to use ...) updated by Nicklas Nordborg
I know that there is no workaround. The syntax with slashes around the …
11:19 AM Ticket #992 (Regular expressions with backslashes trigger "Not allowed to use ...) updated by base
This is quite major because I can't see a workaround for escaping …
11:12 AM Ticket #994 (Create GAL export plug-in for array designs) updated by base
What's wrong with just downloading the "reporter map" in the "data …
8:16 AM Ticket #932 (Convert the MeV launcher to an extension) updated by Nicklas Nordborg
Status, Owner changed
8:15 AM Changeset [4225] by Nicklas Nordborg
References #989: Add support for using extension classes in custom JSP …
8:15 AM Ticket #989 (Add support for using extension classes in custom JSP pages) updated by Nicklas Nordborg
(In [4225]) References #989: Add support for using extension classes …
8:02 AM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4224]) References #436: Create extension system for the web …
8:02 AM Changeset [4224] by Nicklas Nordborg
References #436: Create extension system for the web application Svn …

Apr 15, 2008:

10:14 PM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) updated by Johan Vallon-Christersson
Replying to nicklas: > The best option left is to open a …
10:09 PM Ticket #927 (Image Macro fails on Feature Trac Page) closed by Johan Vallon-Christersson
fixed
10:06 PM bioassayset_plot.jpg attached to Features by Johan Vallon-Christersson
9:59 PM Features edited by Johan Vallon-Christersson
(diff)
9:58 PM experiment_overview.jpg attached to Features by Johan Vallon-Christersson
9:50 PM bioassayset_histplot.jpg attached to Features by Johan Vallon-Christersson
9:47 PM experiment_explorer.jpg attached to Features by Johan Vallon-Christersson
9:05 PM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) updated by Nicklas Nordborg
I did a quick check for this and it seems like there is no …
8:14 PM Changeset [4223] by Nicklas Nordborg
References #989: Add support for using extension classes in custom JSP …
8:14 PM Ticket #989 (Add support for using extension classes in custom JSP pages) updated by Nicklas Nordborg
(In [4223]) References #989: Add support for using extension classes …
2:24 PM Changeset [4222] by Nicklas Nordborg
References #989: Add support for using extension classes in custom JSP …
2:24 PM Ticket #989 (Add support for using extension classes in custom JSP pages) updated by Nicklas Nordborg
(In [4222]) References #989: Add support for using extension classes …
1:08 PM Ticket #989 (Add support for using extension classes in custom JSP pages) updated by Nicklas Nordborg
Owner, Status changed
12:59 PM dynamic_columns.jpg attached to Features by Johan Vallon-Christersson
12:24 PM Ticket #927 (Image Macro fails on Feature Trac Page) updated by Johan Vallon-Christersson
Status changed
12:22 PM TAM.txt attached to Ticket #994 by Johan Vallon-Christersson
TAM format explained
12:21 PM print64_10k_.tam attached to Ticket #994 by Johan Vallon-Christersson
TAM file used as print map for array design ‘10K_RAP_oligo’.
12:19 PM 10K_RAP_oligo.gal attached to Ticket #994 by Johan Vallon-Christersson
Example GAL file created in BASE1 from array design ‘10K_RAP_oligo’
12:18 PM Ticket #994 (Create GAL export plug-in for array designs) created by Johan Vallon-Christersson
Add functionality to create/download GAL files from array designs …
10:08 AM Ticket #954 (Array slides – Creating array slides using import plugin) updated by Johan Vallon-Christersson
In ticket:993 functionality to enhance usability of the existing …
10:05 AM Ticket #993 (Paste multiple barcodes in the Multiple slides wizard) created by Johan Vallon-Christersson
In BASE2, multiple array slides can be created using the “Multiple …

Apr 14, 2008:

7:30 PM Ticket #927 (Image Macro fails on Feature Trac Page) updated by Nicklas Nordborg
Owner changed
7:29 PM Ticket #957 (Base1PluginExecuter doesn't import plug-in generated BASEfiles as expected) closed by Nicklas Nordborg
fixed: I am closing this now so we can release 2.6.2. New or remaining bugs …
7:13 PM Ticket #992 (Regular expressions with backslashes trigger "Not allowed to use ...) closed by Nicklas Nordborg
wontfix: This can't be fixed. A column mapping ends as soon as a \ is …
5:34 PM Ticket #992 (Regular expressions with backslashes trigger "Not allowed to use ...) created by base
I have some raw data files with column headings F635 Median and …
2:40 PM Changeset [4221] by Nicklas Nordborg
References #988: Add support for servlets in extensions The main …
2:40 PM Ticket #988 (Add support for servlets in extensions) updated by Nicklas Nordborg
(In [4221]) References #988: Add support for servlets in extensions …
7:55 AM Ticket #988 (Add support for servlets in extensions) updated by Nicklas Nordborg
Description, Status, Owner changed
7:53 AM Ticket #955 (Array slides – make test for barcode uniqueness) closed by Nicklas Nordborg
fixed: (In [4220]) Fixes #955: Array slides ?\226?\128?\147 make test for …
7:53 AM Changeset [4220] by Nicklas Nordborg
Fixes #955: Array slides – make test for barcode uniqueness

Apr 11, 2008:

5:36 PM Ticket #991 (Created date - auto changed from blank when edit sample) created by Johan Vallon-Christersson
When editing a sample that does not have Creation date defined …
5:32 PM Ticket #990 (Change default create date for samples (and other items).) created by Johan Vallon-Christersson
When adding Samples the Created date is by default set to current …
2:39 PM Ticket #955 (Array slides – make test for barcode uniqueness) updated by Nicklas Nordborg
Status, Owner changed
This is how it can be implemented. Due to backwards compatibility this …
1:57 PM Ticket #986 (Move example code for web services to the BASE plug-ins site) closed by Nicklas Nordborg
fixed
1:54 PM Ticket #986 (Move example code for web services to the BASE plug-ins site) updated by Nicklas Nordborg
(In [4219]) References #986: Move example code for web services to the …
1:54 PM Changeset [4219] by Nicklas Nordborg
References #986: Move example code for web services to the BASE …
12:02 PM Ticket #986 (Move example code for web services to the BASE plug-ins site) updated by Nicklas Nordborg
Status, Owner changed
11:49 AM Ticket #898 (Move example code for plug-ins to the BASE plug-ins site) closed by Nicklas Nordborg
fixed
11:46 AM DeveloperInformation edited by Nicklas Nordborg
Changed documentation links (diff)
11:41 AM DeveloperInformation edited by Nicklas Nordborg
Link to new site for examples (diff)
10:58 AM Changeset [4218] by Nicklas Nordborg
References #898: Move example code for plug-ins to the BASE plug-ins …
10:58 AM Ticket #898 (Move example code for plug-ins to the BASE plug-ins site) updated by Nicklas Nordborg
(In [4218]) References #898: Move example code for plug-ins to the …

Apr 10, 2008:

9:47 PM Ticket #989 (Add support for using extension classes in custom JSP pages) created by Nicklas Nordborg
An extensions that uses custom JSP pages are currently limited to use …
9:31 PM Ticket #988 (Add support for servlets in extensions) created by Nicklas Nordborg
This is "needed" by the MeV launcher. It currently uses the MevExport
7:31 PM Ticket #987 (NullPointerException in "Test with file" function if no "data header ...) updated by Nicklas Nordborg
Summary, Component, Description, Priority changed
It happens because the functionality in the "Column mappings tab" …
6:10 PM Ticket #987 (NullPointerException in "Test with file" function if no "data header ...) updated by Johan Vallon-Christersson
Description changed
6:09 PM Ticket #987 (NullPointerException in "Test with file" function if no "data header ...) updated by Johan Vallon-Christersson
Description changed
6:08 PM Ticket #987 (NullPointerException in "Test with file" function if no "data header ...) updated by Johan Vallon-Christersson
Summary changed
6:08 PM extract.export.txt attached to Ticket #987 by Johan Vallon-Christersson
File for annotation import
6:07 PM Ticket #987 (NullPointerException in "Test with file" function if no "data header ...) created by Johan Vallon-Christersson
When using Annotation importer. Input file is small and contains two …
2:35 PM Ticket #898 (Move example code for plug-ins to the BASE plug-ins site) updated by Nicklas Nordborg
Owner, Summary, Status changed
Putting web services examples as a separate ticket: #986.
2:34 PM Ticket #986 (Move example code for web services to the BASE plug-ins site) created by Nicklas Nordborg
Was part of #898. Better to have this as it's own ticket.
2:30 PM Ticket #943 (Base1PluginExecuter should import reporterlists) updated by Nicklas Nordborg
There are major changes in the Base1PluginExecutor in the 2.6 branch. …
2:28 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4217]) References #436: Create extension system for the web …
2:28 PM Changeset [4217] by Nicklas Nordborg
References #436: Create extension system for the web application …
2:23 PM Changeset [4216] by Nicklas Nordborg
Fixes #985: File sizes are not correctly rounded Also fixed so that …
2:23 PM Ticket #985 (File sizes are not correctly rounded) closed by Nicklas Nordborg
fixed: (In [4216]) Fixes #985: File sizes are not correctly rounded Also …
1:58 PM Ticket #985 (File sizes are not correctly rounded) created by Nicklas Nordborg
I uploaded a file which size is 4050 (~3.995Kb) bytes in size. This is …
1:52 PM Changeset [4215] by Nicklas Nordborg
Fixes #984: Bioassays may show up duplicated in list of bioassays The …
1:52 PM Ticket #984 (Bioassays may show up duplicated in list of bioassays) closed by Nicklas Nordborg
fixed: (In [4215]) Fixes #984: Bioassays may show up duplicated in list of …
1:46 PM Ticket #984 (Bioassays may show up duplicated in list of bioassays) updated by Nicklas Nordborg
Owner, Status changed
1:45 PM Ticket #983 (update.sh script doesn't validate parameters) closed by Nicklas Nordborg
fixed: (In [4214]) Fixes #983: update.sh script doesn't validate parameters
1:45 PM Changeset [4214] by Nicklas Nordborg
Fixes #983: update.sh script doesn't validate parameters
1:44 PM Ticket #983 (update.sh script doesn't validate parameters) updated by Nicklas Nordborg
Milestone, Status, Summary, Owner, Priority changed
There is a bug in the code that doesn't detect an incorrect number of …
1:42 PM Changeset [4213] by Nicklas Nordborg
Fixes #980: Items created by jobs are not shared to the active project.
1:42 PM Ticket #980 (Items created by jobs are not shared to the active project.) closed by Nicklas Nordborg
fixed: (In [4213]) Fixes #980: Items created by jobs are not shared to the …
12:53 PM Ticket #957 (Base1PluginExecuter doesn't import plug-in generated BASEfiles as expected) updated by Nicklas Nordborg
(In [4212]) References #957: Base1PluginExecuter doesn't import …
12:53 PM Changeset [4212] by Nicklas Nordborg
References #957: Base1PluginExecuter doesn't import plug-in generated …
12:18 PM Ticket #984 (Bioassays may show up duplicated in list of bioassays) created by Nicklas Nordborg
I am not really sure why this is happening. Sometimes a bioassay …
12:09 PM Ticket #983 (update.sh script doesn't validate parameters) created by Jari Häkkinen
I am following the Illumina plug-in installation recipe and read that …

Apr 9, 2008:

9:03 PM Ticket #980 (Items created by jobs are not shared to the active project.) updated by Nicklas Nordborg
Owner, Milestone, Summary, Priority, Status changed
Hmmm... I get the same behavior. I have no idea why. The active …
4:08 PM Ticket #982 (Wrong destination (for shared to user) from link to directory from ...) created by Johan Vallon-Christersson
After running a plugin (that creates directories and files and …
3:16 PM Ticket #981 (Share all subdirectories and files when sharing a directory) created by Johan Vallon-Christersson
When sharing a directory, its subdirectories and files are not shared. …
3:15 PM Ticket #980 (Items created by jobs are not shared to the active project.) created by Johan Vallon-Christersson
The user case: When working in an active project I run a plugin in an …
2:44 PM Ticket #979 (Biomaterial LIMS) created by Johan Vallon-Christersson
Enhancing biomaterial management in BASE by adding Biomaterial LIMS …

Apr 8, 2008:

2:59 PM Ticket #978 (Unzipped files never inherit file type specified during upload) updated by Nicklas Nordborg
Unfortunately this is an "unfixable" defect. The API for unpacking …
2:16 PM Ticket #978 (Unzipped files never inherit file type specified during upload) created by base
There should perhaps be an option to unpack an uploaded zip file …

Apr 7, 2008:

2:09 PM Ticket #957 (Base1PluginExecuter doesn't import plug-in generated BASEfiles as expected) updated by Nicklas Nordborg
Status changed
2:02 PM Changeset [4211] by Nicklas Nordborg
Fixes #970: PluginConfigurationImporter doesn't support multi-valued …
2:02 PM Ticket #970 (PluginConfigurationImporter doesn't support multi-valued parameters) closed by Nicklas Nordborg
fixed: (In [4211]) Fixes #970: PluginConfigurationImporter doesn't support …
1:48 PM Ticket #970 (PluginConfigurationImporter doesn't support multi-valued parameters) updated by Nicklas Nordborg
Owner, Status changed
1:48 PM Changeset [4210] by Nicklas Nordborg
Fixes #977: ClassCastException in Experiment overview when clicking on …
1:48 PM Ticket #977 (ClassCastException in Experiment overview when clicking on an ...) closed by Nicklas Nordborg
fixed: (In [4210]) Fixes #977: ClassCastException in Experiment overview when …
1:25 PM Ticket #977 (ClassCastException in Experiment overview when clicking on an ...) updated by Nicklas Nordborg
Status, Owner changed
1:24 PM Ticket #977 (ClassCastException in Experiment overview when clicking on an ...) created by Nicklas Nordborg
1. Select an experiment which has at least one experimental factor. …
1:19 PM Changeset [4209] by Nicklas Nordborg
Fixes #976: NullPointerException in Experiment overview
1:19 PM Ticket #976 (NullPointerException in Experiment overview) closed by Nicklas Nordborg
fixed: (In [4209]) Fixes #976: NullPointerException in Experiment overview
1:03 PM Ticket #976 (NullPointerException in Experiment overview) updated by Nicklas Nordborg
Status, Owner changed
1:01 PM Changeset [4208] by Nicklas Nordborg
References #436: Create extension system for the web application …
1:01 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4208]) References #436: Create extension system for the web …
12:21 PM Ticket #975 (Experimental overview – error/erroneous warning – Duplicate sub-array index) updated by Nicklas Nordborg
I think I have found the source for the NullPointerException. See #976.
12:19 PM Ticket #976 (NullPointerException in Experiment overview) created by Nicklas Nordborg
The original report is found in #975. I have now been able to …
8:09 AM Ticket #975 (Experimental overview – error/erroneous warning – Duplicate sub-array index) updated by Nicklas Nordborg
I don't think the NullPointerException has anything to do with the …

Apr 4, 2008:

6:37 PM Ticket #975 (Experimental overview – error/erroneous warning – Duplicate sub-array index) updated by Johan Vallon-Christersson
Description changed
6:36 PM Ticket #975 (Experimental overview – error/erroneous warning – Duplicate sub-array index) created by Johan Vallon-Christersson
Working in an experiment containing 3 raw bioassays, all from the same …
2:44 PM Changeset [4207] by Nicklas Nordborg
References #436: Create extension system for the web application …
2:44 PM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4207]) References #436: Create extension system for the web …
1:46 PM Ticket #954 (Array slides – Creating array slides using import plugin) updated by Johan Vallon-Christersson
We have plans to create specifications for a more general item …
8:42 AM Changeset [4206] by Nicklas Nordborg
References #436: Create extension system for the web application …
8:42 AM Ticket #436 (Create extension system for the web application) updated by Nicklas Nordborg
(In [4206]) References #436: Create extension system for the web …

Apr 3, 2008:

8:24 PM Ticket #972 (Assign job to experiment when the job is created) updated by Nicklas Nordborg
Plug-ins may do that, but none of them do it today except intensity …
8:05 PM Ticket #966 (Registered and possibly last updated – add to all/most items) updated by Nicklas Nordborg
The 'registered' property would be easier. This could be hooked into …
11:51 AM Ticket #972 (Assign job to experiment when the job is created) updated by Johan Vallon-Christersson
Replying to nicklas: > Hmmm... the problem is that a job …
11:34 AM Ticket #974 (Link from raw bioassay to job that imported the raw data) created by Johan Vallon-Christersson
This ticket relates to ticket:750 A user scenario involves going back …

Apr 2, 2008:

8:41 PM Ticket #973 (Add a 'svn.update' target to the build file) updated by Nicklas Nordborg
Description, Summary changed
8:41 PM Ticket #973 (Add a 'svn.update' target to the build file) closed by Nicklas Nordborg
fixed: (In [4205]) Fixes #973: Add a 'svn.update' target to the build file
8:41 PM Changeset [4205] by Nicklas Nordborg
Fixes #973: Add a 'svn.update' target to the build file
7:54 PM Ticket #973 (Add a 'svn.update' target to the build file) created by Nicklas Nordborg
This would simplify automatic generation of the documentation. After …
7:42 PM Ticket #972 (Assign job to experiment when the job is created) updated by Nicklas Nordborg
Type, Component changed
Hmmm... the problem is that a job doesn't become part of an experiment …
6:33 PM MergeBioassays_stdout.txt attached to Ticket #957 by Johan Vallon-Christersson
6:33 PM MergeBioassays_stdin.txt attached to Ticket #957 by Johan Vallon-Christersson
6:32 PM PositionMerge_stdout.txt attached to Ticket #957 by Johan Vallon-Christersson
6:32 PM PositionMerge_stdin.txt attached to Ticket #957 by Johan Vallon-Christersson
6:31 PM CGHnormalization_stdout.txt attached to Ticket #957 by Johan Vallon-Christersson
6:30 PM CGHnormalization_stdin.txt attached to Ticket #957 by Johan Vallon-Christersson
6:27 PM VariationFilter_stdout.txt attached to Ticket #957 by Johan Vallon-Christersson
6:27 PM VariationFilter_stdin.txt attached to Ticket #957 by Johan Vallon-Christersson
6:27 PM RatioFold_stdout.txt attached to Ticket #957 by Johan Vallon-Christersson
6:26 PM RatioFold_stdin.txt attached to Ticket #957 by Johan Vallon-Christersson
6:25 PM Ticket #957 (Base1PluginExecuter doesn't import plug-in generated BASEfiles as expected) updated by Johan Vallon-Christersson
Basing the decision about creating a new data cube or not on …
5:44 PM Ticket #966 (Registered and possibly last updated – add to all/most items) updated by Johan Vallon-Christersson
As the 'registered' property and 'last updated' property can be …
5:06 PM Ticket #972 (Assign job to experiment when the job is created) created by Johan Vallon-Christersson
This ticket concerns jobs running in experiments. Typically, a user …
2:57 PM norm.export.xml attached to Ticket #970 by base
1:46 PM Ticket #971 (Be able to upgrade BASE without restarting Tomcat) closed by Nicklas Nordborg
invalid: This is problem with Tomcat.
1:26 PM Ticket #971 (Be able to upgrade BASE without restarting Tomcat) updated by base
I just stopped base2 in tomcat manager, deleted the …
1:20 PM Ticket #971 (Be able to upgrade BASE without restarting Tomcat) created by base
I just upgraded our dev server (system info below) […] and found …
12:43 PM Ticket #970 (PluginConfigurationImporter doesn't support multi-valued parameters) created by Nicklas Nordborg
From the mailing list: …
12:43 PM Ticket #963 (New hybridization... button on labelled extract page doesn't work as ...) updated by base
Great, thanks. Tested. Works :-)
10:44 AM Changeset [4204] by Nicklas Nordborg
Fixes #969: Annotation importer doesn't save "Owned by ..." parameter …
10:44 AM Ticket #969 (Annotation importer doesn't save "Owned by ..." parameter values) closed by Nicklas Nordborg
fixed: (In [4204]) Fixes #969: Annotation importer doesn't save "Owned by …
9:44 AM Ticket #969 (Annotation importer doesn't save "Owned by ..." parameter values) updated by Nicklas Nordborg
Status, Owner changed
9:43 AM Ticket #963 (New hybridization... button on labelled extract page doesn't work as ...) closed by Nicklas Nordborg
fixed: (In [4203]) Fixes #963: New hybridization... button on labelled …
9:43 AM Changeset [4203] by Nicklas Nordborg
Fixes #963: New hybridization... button on labelled extract page …
9:25 AM Ticket #966 (Registered and possibly last updated – add to all/most items) updated by Nicklas Nordborg
This ticket is a bit related to #108. In fact, both can be solved at …
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