Timeline



Jun 25, 2009:

9:57 AM Ticket #182 (Illumina probes not found message should be documented) closed by Martin Svensson
fixed
9:49 AM Changeset [1142] by Martin Svensson
Fixes #180 Overview plot extensions for Illumina expression
9:49 AM Ticket #180 (Overview plot extensions for Illumina expression) closed by Martin Svensson
fixed: (In [1142]) Fixes #180 Overview plot extensions for Illumina expression

Jun 24, 2009:

2:07 PM Changeset [1141] by Martin Svensson
References #180 The work with the plotting extension is now finished …
1:02 PM Changeset [1140] by Nicklas Nordborg
Making README a trac wiki page
1:01 PM net.sf.basedb.genepattern edited by Nicklas Nordborg
Added some information about the package (diff)
12:55 PM Changeset [1139] by Nicklas Nordborg
References #223: Add target in build.xml for downloading required …
12:50 PM Changeset [1138] by Nicklas Nordborg
References #223: Add target in build.xml for downloading required …

Jun 23, 2009:

3:59 PM Changeset [1137] by Martin Svensson
References #180. Some necassary libraries for the JFreePlots.
3:58 PM Changeset [1136] by Martin Svensson
References #180. Some necassary libraries for the JFreePlots.
3:52 PM Changeset [1135] by Martin Svensson
References #180 The overview plots are almost finished. Some smaller …

Jun 22, 2009:

2:00 PM Changeset [1134] by Nicklas Nordborg
References #234: Proof-of-concept: run a selected GenePattern?

Jun 18, 2009:

3:56 PM Changeset [1133] by Martin Svensson
References #180 Created classes for the control summary plots.
2:26 PM Changeset [1132] by Nicklas Nordborg
References #234: Proof-of-concept: run a selected GenePattern?
2:23 PM Ticket #234 (Proof-of-concept: run a selected GenePattern visualization module from BASE) created by Nicklas Nordborg
We will use the ComparativeMarkerSelectionViewer? module which is used …

Jun 16, 2009:

1:38 PM Changeset [1131] by Nicklas Nordborg
References #218: Proof-of-concept: run a selected GenePattern? module …
1:34 PM Changeset [1130] by Nicklas Nordborg
References #229: Implement API for additional GenePattern? web services …
1:33 PM Changeset [1129] by Nicklas Nordborg
References #222: Utility for transfering file between BASE and a …

Jun 15, 2009:

2:43 PM Changeset [1128] by Nicklas Nordborg
References #222, #218, #229. Several changes just to make things work.
2:38 PM Changeset [1127] by Nicklas Nordborg
References #222: Utility for transfering file between BASE and a …
2:02 PM Changeset [1126] by Nicklas Nordborg
References #221: Configure GenePattern? server Added field for URL to …
12:31 PM Changeset [1125] by Nicklas Nordborg
Fixes #233: Add example that uses the alternate approach for invoking …
12:31 PM Ticket #233 (Add example that uses the alternate approach for invoking servlets) closed by Nicklas Nordborg
fixed: (In [1125]) Fixes #233: Add example that uses the alternate approach …
12:01 PM Ticket #233 (Add example that uses the alternate approach for invoking servlets) created by Nicklas Nordborg
See http://base.thep.lu.se/ticket/1333. * The original way: …

Jun 10, 2009:

11:58 PM Changeset [1124] by Jari Häkkinen
Fixes #231.
11:58 PM Ticket #231 (Illumina detection P-value fails if no negative controls are available ...) closed by Jari Häkkinen
fixed: (In [1124]) Fixes #231.
11:56 PM Changeset [1123] by Jari Häkkinen
Fixed CamelCase escape
11:41 PM Changeset [1122] by Jari Häkkinen
Fixes #227.
11:41 PM Ticket #227 (Illumina detection P-value plug-in description must be improved) closed by Jari Häkkinen
fixed: (In [1122]) Fixes #227.
10:49 PM Changeset [1121] by Jari Häkkinen
Fixes #230. Lower limit is now 1.
10:49 PM Ticket #230 (Illumina detection P-value Control outlier cut-off parameter cannot be zero) closed by Jari Häkkinen
fixed: (In [1121]) Fixes #230. Lower limit is now 1.
10:42 PM Ticket #232 (Fix deprecation warnings in detection P-value plug-in) closed by Jari Häkkinen
fixed: (In [1120]) Fixes #232.
10:42 PM Changeset [1120] by Jari Häkkinen
Fixes #232.
1:36 PM Changeset [1119] by Nicklas Nordborg
References #218: Proof-of-concept: run a selected GenePattern? module …
1:21 PM Changeset [1118] by Nicklas Nordborg
References #229: Implement API for additional GenePattern? web services …
1:13 PM Changeset [1117] by Nicklas Nordborg
References #221: Configure GenePattern? server Changed the AJAX calls …
12:54 PM Changeset [1116] by Nicklas Nordborg
References #222 and #229. File transfer gateway now uses the new wrappers.
12:51 PM Changeset [1115] by Nicklas Nordborg
References #229: Implement API for additional GenePattern? web services …
12:13 AM Ticket #232 (Fix deprecation warnings in detection P-value plug-in) created by Jari Häkkinen
And BackgroundCorrection plug-in
12:09 AM Changeset [1114] by Jari Häkkinen
Addresses #113. The Pvalue calculation is in place. Need to figure …

Jun 9, 2009:

9:48 PM Ticket #231 (Illumina detection P-value fails if no negative controls are available ...) created by Jari Häkkinen
The message is Error -1. Change the message to something more informative.
9:39 PM Ticket #230 (Illumina detection P-value Control outlier cut-off parameter cannot be zero) created by Jari Häkkinen
Setting the parameter to 0 creates an empty control probe set. Change …
12:14 AM Changeset [1113] by Jari Häkkinen
Addresses #227
12:08 AM Changeset [1112] by Jari Häkkinen
Addresses #227

Jun 8, 2009:

10:30 PM Changeset [1111] by Jari Häkkinen
Adding and changing svn properties.
10:26 PM net.sf.basedb.illumina edited by Jari Häkkinen
Updated link. (diff)
10:20 PM net.sf.basedb.illumina edited by Jari Häkkinen
Split listing of todo to sections assigned and others (diff)

Jun 5, 2009:

1:53 PM Changeset [1110] by Nicklas Nordborg
References #218: Proof-of-concept: run a selected GenePattern? module …
8:36 AM Ticket #229 (Implement API for additional GenePattern web services) created by Nicklas Nordborg
The GenePattern? API includes an API for accessing some parts of the …

Jun 4, 2009:

11:35 AM Changeset [1109] by Nicklas Nordborg
References #222: Utility for transfering file between BASE and a …
9:18 AM Changeset [1108] by Nicklas Nordborg
Fixes #221: Configure GenePattern? server The settings are now saved …
9:18 AM Ticket #221 (Configure GenePattern server) closed by Nicklas Nordborg
fixed: (In [1108]) Fixes #221: Configure GenePattern? server The settings are …

Jun 3, 2009:

9:25 PM Ticket #221 (Configure GenePattern server) reopened by Nicklas Nordborg
It will not work to store the GenePattern? options with …
10:48 AM Changeset [1107] by Nicklas Nordborg
References #222: Utility for transfering file between BASE and a …
8:43 AM Ticket #228 (net.sf.basedb.normalizers: Normalizers should use ask BASE whether ...) created by Jari Häkkinen
and use that information appropriately. Either set a proper default …
8:21 AM Ticket #227 (Illumina detection P-value plug-in description must be improved) created by Jari Häkkinen
The current information does not say anything. Look at …

Jun 2, 2009:

9:34 AM Changeset [1106] by Nicklas Nordborg
Fixes #224: Add a "Test" button on the GenePattern? 'edit server' page …
9:34 AM Ticket #224 (Add a "Test" button on the GenePattern 'edit server' page) closed by Nicklas Nordborg
fixed: (In [1106]) Fixes #224: Add a "Test" button on the GenePattern? 'edit …

Jun 1, 2009:

9:36 PM Ticket #226 (Update to MeV 4.4) created by Jari Häkkinen
We should upgrade the MeV package. …
8:45 AM Changeset [1105] by Nicklas Nordborg
Ant 1.7 is needed for zip file extraction with the <mapper> element.
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