Timeline



Sep 30, 2009:

2:43 PM Ticket #250 (Add GSEA as an extension) created by Jari Häkkinen
http://www.broadinstitute.org/gsea/ GSEA source is available and …

Sep 29, 2009:

3:06 PM Changeset [1175] by Jari Häkkinen
Updated release procedure. Fixed BASE version requirement.
2:31 PM se.lu.onk.IlluminaSNPNormalization edited by markus
(diff)
2:19 PM Changeset [1174] by Jari Häkkinen
Preparing for future 1.5 release.
2:13 PM Milestone Illumina package v1.4 completed
See Illumina plug-ins package for BASE
2:13 PM Ticket #249 (net.sf.basedb.illumina: Version should autopropagate from build.xml to ...) created by Jari Häkkinen
At least when packaging.
2:11 PM net.sf.basedb.illumina edited by Jari Häkkinen
(diff)
2:10 PM illumina-plugins-1.4.tar.gz attached to net.sf.basedb.illumina by Jari Häkkinen
2:10 PM Changeset [1173] by Jari Häkkinen
Tagging Illumina package 1.4 a second time
2:09 PM Changeset [1172] by Jari Häkkinen
Preparing release 1.4 once more
2:08 PM Changeset [1171] by Jari Häkkinen
Missed to change on version number in source code.
2:05 PM Ticket #205 (Change link README_PluginDetails to point to tags at next release) closed by Jari Häkkinen
fixed
2:05 PM net.sf.basedb.illumina edited by Jari Häkkinen
Releasing Illumina package v1.4 (diff)
1:58 PM Changeset [1170] by Jari Häkkinen
Tagging Illumina package 1.4
1:55 PM Changeset [1169] by Jari Häkkinen
Preparing release 1.4
11:53 AM Ticket #204 (Add option to include all available negative controls in detection ...) closed by Jari Häkkinen
fixed: (In [1168]) Fixes #204. Also improved docs.
11:53 AM Changeset [1168] by Jari Häkkinen
Fixes #204. Also improved docs.

Sep 28, 2009:

2:51 PM Changeset [1167] by Jari Häkkinen
Fixes #113. The code change in changeset:1114 is valid, fixed docs.
2:51 PM Ticket #113 (Add support for more variations of Illumina detection P-value calculations) closed by Jari Häkkinen
fixed: (In [1167]) Fixes #113. The code change in changeset:1114 is valid, …
1:31 PM Changeset [1166] by Jari Häkkinen
Fixes #235 and spelling.
1:31 PM Ticket #235 (Illumina package: Add instructions on how to remove 'Illumina' raw ...) closed by Jari Häkkinen
fixed: (In [1166]) Fixes #235 and spelling.
10:36 AM net.sf.basedb.illumina edited by Jari Häkkinen
Added link to trunk source tree. (diff)

Sep 25, 2009:

2:44 PM Ticket #248 (net.sf.basedb.illumina: The background correction plug-in should store ...) created by Jari Häkkinen
Now the assays are background corrected but it would be nice to easily …
2:10 PM Changeset [1165] by Nicklas Nordborg
References #242: Implement "Save to BASE" function in the MeV gui The …

Sep 23, 2009:

11:38 AM PluginDownload edited by Jari Häkkinen
Updated BASE 1 download link. (diff)
11:08 AM Changeset [1164] by Jari Häkkinen
Fixes #247. A work around for the erroneous export from exportPlainMatrix.
11:08 AM Ticket #247 (net.sf.basedb.normalizers: qQuantileNormalization crashes when ...) closed by Jari Häkkinen
fixed: (In [1164]) Fixes #247. A work around for the erroneous export from …
11:02 AM Ticket #247 (net.sf.basedb.normalizers: qQuantileNormalization crashes when ...) created by Jari Häkkinen
When qQuantiler normalizes bioassay sets where assays have been …

Sep 22, 2009:

1:52 PM Changeset [1163] by Nicklas Nordborg
References #242: Implement "Save to BASE" function in the MeV gui The …
9:05 AM Ticket #246 (Add MeV Analysis file to list of MIME types) closed by Nicklas Nordborg
fixed: (In [1162]) Fixes #246: Add MeV Analysis file to list of MIME types
9:05 AM Changeset [1162] by Nicklas Nordborg
Fixes #246: Add MeV Analysis file to list of MIME types
8:16 AM Ticket #246 (Add MeV Analysis file to list of MIME types) created by Nicklas Nordborg
The analysis file is actually a zip file with a .anl extension.

Sep 18, 2009:

4:18 PM Ticket #245 (net.sf.basedb.illumina: Detection P-value fails if there is no ...) created by Jari Häkkinen
The plug-in returns with Status: Error: -1 The plug-in should return …

Sep 16, 2009:

8:57 AM Changeset [1161] by Nicklas Nordborg
Fixes #241: Add MeV Analysis file as a file type for bioassay sets …
8:57 AM Ticket #241 (Add MeV Analysis file as a file type for bioassay sets) closed by Nicklas Nordborg
fixed: (In [1161]) Fixes #241: Add MeV Analysis file as a file type for …

Sep 15, 2009:

2:37 PM Ticket #243 (Create a sample MeV analysis file for testing purposes) closed by Nicklas Nordborg
fixed: The test files (one tdms file and one analysis file) can be found in …
2:28 PM Changeset [1160] by Nicklas Nordborg
References #241: Add MeV Analysis file as a file type for bioassay …
1:22 PM Changeset [1159] by Nicklas Nordborg
References #241: Add MeV Analysis file as a file type for bioassay …
12:51 PM Changeset [1158] by Nicklas Nordborg
Checking in the .classpath file for Eclipse since it is so boring to …
12:46 PM Changeset [1157] by Nicklas Nordborg
References #241: Add MeV Analysis file as a file type for bioassay …

Sep 14, 2009:

1:44 PM Changeset [1156] by Nicklas Nordborg
References #241: Add MeV Analysis file as a file type for bioassay …

Sep 11, 2009:

2:02 PM se.lu.onk.IlluminaSNPNormalization edited by markus
(diff)

Sep 9, 2009:

10:48 AM Ticket #244 (Create a SAM plug-in) created by Jari Häkkinen
SAM is available in MeV but it would be nice to have it as an …

Sep 4, 2009:

9:08 AM Ticket #125 (MeV ... files are now supported (by the BASEcore) in the BASE analysis tree) closed by Nicklas Nordborg
duplicate: Replaced by #241, #242 and #243.
9:07 AM Ticket #243 (Create a sample MeV analysis file for testing purposes) created by Nicklas Nordborg
This is needed by #241 and #242. This ticket replaces #125.
9:03 AM Ticket #242 (Implement "Save to BASE" function in the MeV gui) created by Nicklas Nordborg
For background info see #241. We should investigate and try to …
9:00 AM Ticket #241 (Add MeV Analysis file as a file type for bioassay sets) created by Nicklas Nordborg
The scenario is this. A users uses the MeV extension to export and …
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