Timeline
Apr 27, 2009:
- 4:25 PM Ticket #211 (Request: R/G quantile normalization) updated by
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Type changed
- 4:24 PM Ticket #211 (Request: R/G quantile normalization) created by
- Copied from the BASE users mailing list (April 27, 2009): Yannick …
- 3:32 PM Ticket #210 (net.sf.basedb.normalizers: Add proper 2-channel support to ...) updated by
-
Status changed
- 3:32 PM Ticket #210 (net.sf.basedb.normalizers: Add proper 2-channel support to ...) created by
- That is, keep our old favourite A \propto ln(ch1*ch2) the same value …
- 3:24 PM Changeset [1047] by
- Fixes #206. Missing values in reference now works. Each probe with no …
- 3:24 PM Ticket #206 (net.sf.basedb.normalizers: Make qQuantileNormalization handle missing ...) closed by
- fixed: (In [1047]) Fixes #206. Missing values in reference now works. Each …
- 1:14 PM Changeset [1046] by
- Debugging should be turned if in repository code.
- 1:08 PM Ticket #180 (Overview plot extensions for Illumina expression) updated by
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Description changed
- 11:57 AM Ticket #180 (Overview plot extensions for Illumina expression) updated by
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Description, Summary changed
- 11:31 AM Ticket #209 (Export of data to data repositories such as GEO and ArrayExpress) updated by
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Description changed
- 11:30 AM Ticket #209 (Export of data to data repositories such as GEO and ArrayExpress) created by
- We should create an export plug-in/extesion for the GEO repository, …
Apr 25, 2009:
- 1:29 AM Ticket #208 (Revert changeset:1045 when yat bug ...) updated by
- Just a minor comment: Either yat 0.5.3 should be required OR one …
Apr 24, 2009:
- 10:54 PM Ticket #208 (Revert changeset:1045 when yat bug ...) updated by
-
Description changed
- 10:54 PM Ticket #208 (Revert changeset:1045 when yat bug ...) created by
- Revert changeset:1045 when yat bug …
- 10:52 PM Changeset [1045] by
- Missing values now works with the implemented fix to avoid a bug in …
Apr 23, 2009:
- 7:09 PM Changeset [1044] by
- Addresses #118 and #206. If no assay data is given use the average of …
- 7:09 PM Tickets #118,206 batch updated by
- (In [1044]) Addresses #118 and #206. If no assay data is given use the …
- 6:55 PM Changeset [1043] by
- Addresses #118 and #206. This code produces the same result as the …
- 6:55 PM Tickets #118,206 batch updated by
- (In [1043]) Addresses #118 and #206. This code produces the same …
- 6:53 PM Ticket #206 (net.sf.basedb.normalizers: Make qQuantileNormalization handle missing ...) updated by
-
Summary changed
- 6:31 PM uk.ac.ebi.Tab2MageExporter edited by
- Fixed broken links. (diff)
- 10:14 AM Ticket #158 (README in PluginUtilities refers to AbstractRunBinary.jar) updated by
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Status, Owner changed
- 10:11 AM Ticket #207 (Illumina DASL arrays) created by
- Make sure that DASL arrays can be used in BASE. Detection p-value …
Apr 20, 2009:
- 10:41 PM Changeset [1042] by
- Changed qqn package name.
- 10:37 PM Changeset [1041] by
- Changed qqn package name.
- 9:56 PM Ticket #206 (net.sf.basedb.normalizers: Make qQuantileNormalization handle missing ...) updated by
-
Status changed
- 9:56 PM Ticket #206 (net.sf.basedb.normalizers: Make qQuantileNormalization handle missing ...) created by
- 9:44 PM Changeset [1040] by
- Use getCurrentBioAssaySet in configuration phase.
Apr 16, 2009:
- 1:34 PM Ticket #160 (wenni and the underlying super class should be abortable (se.lu.thep.WeNNI)) updated by
- Abort functionality is supported by the super class …
- 1:31 PM Ticket #160 (wenni and the underlying super class should be abortable (se.lu.thep.WeNNI)) updated by
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Status, Owner changed
- 1:30 PM Ticket #185 (External binary plugins should be interruptable from BASE.) updated by
-
Status changed
- 11:59 AM Ticket #190 (net.sf.basedb.normalizers: Add target that tries to build qQN if requested) closed by
- fixed: (In [1039]) Fixes #190. target c++ added.
- 11:59 AM Changeset [1039] by
- Fixes #190. target c++ added.
Apr 14, 2009:
- 3:56 PM Ticket #205 (Change link README_PluginDetails to point to tags at next release) created by
- The information in …
- 3:53 PM net.sf.basedb.illumina edited by
- Added link to detail information of the detection P-value plug-in. (diff)
- 3:47 PM Changeset [1038] by
- Added some detailed information on detection P-calue plug-in
- 3:42 PM Ticket #204 (Add option to include all available negative controls in detection ...) created by
- Add an user selectable option to use all in raw data available …
Apr 8, 2009:
- 5:23 PM Changeset [1037] by
- Removed duplicated code block.
- 12:07 AM Changeset [1036] by
- Fixes #197. Abort functionality implemented.
- 12:07 AM Ticket #197 (net.sf.basedb.normalizers: Add abort functionaly to qQuantileNormalizers) closed by
- fixed: (In [1036]) Fixes #197. Abort functionality implemented.
- 12:06 AM Changeset [1035] by
- Addresses #197. Abort functionality in place in abstract class.
- 12:06 AM Ticket #197 (net.sf.basedb.normalizers: Add abort functionaly to qQuantileNormalizers) updated by
- (In [1035]) Addresses #197. Abort functionality in place in abstract class.
Apr 7, 2009:
- 11:22 PM Changeset [1034] by
- Peter says: Use proper classes
- 8:27 AM Changeset [1033] by
- Fixes #200: Change source files to UTF-8
- 8:27 AM Ticket #200 (Change source files to UTF-8) closed by
- fixed: (In [1033]) Fixes #200: Change source files to UTF-8
- 8:25 AM Ticket #200 (Change source files to UTF-8) updated by
-
Status changed
- 8:24 AM Changeset [1032] by
- Fixes #202: Change source files to UTF-8
- 8:24 AM Ticket #202 (Change source files to UTF-8) closed by
- fixed: (In [1032]) Fixes #202: Change source files to UTF-8
- 8:15 AM Changeset [1031] by
- Joining Nicklas change to UTF-8 frenzy.
- 8:15 AM Ticket #202 (Change source files to UTF-8) updated by
-
Status changed
- 8:14 AM Changeset [1030] by
- Fixes #199: Change source files to UTF-8
- 8:14 AM Ticket #199 (Change source files to UTF-8) closed by
- fixed: (In [1030]) Fixes #199: Change source files to UTF-8
- 8:14 AM Changeset [1029] by
- Joining Nicklas change to UTF-8 frenzy.
- 8:12 AM Ticket #199 (Change source files to UTF-8) updated by
-
Status changed
- 8:10 AM Changeset [1028] by
- References #203: Change source files to UTF-8 Changed 'Hakkinen' to …
- 8:10 AM Ticket #203 (Change source files to UTF-8) updated by
- (In [1028]) References #203: Change source files to UTF-8 Changed …
- 8:08 AM Ticket #198 (Change source files to UTF-8) updated by
- (In [1027]) References #198: Change source files to UTF-8 It is safer …
- 8:08 AM Changeset [1027] by
- References #198: Change source files to UTF-8 It is safer to set …
- 8:06 AM Ticket #203 (Change source files to UTF-8) closed by
- fixed: (In [1026]) Fixes #203: Change source files to UTF-8
- 8:06 AM Changeset [1026] by
- Fixes #203: Change source files to UTF-8
- 8:00 AM Ticket #203 (Change source files to UTF-8) updated by
-
Status changed
- 7:59 AM Changeset [1025] by
- Fixes #201: Change source files to UTF-8
- 7:59 AM Ticket #201 (Change source files to UTF-8) closed by
- fixed: (In [1025]) Fixes #201: Change source files to UTF-8
- 7:57 AM Ticket #201 (Change source files to UTF-8) updated by
-
Status changed
- 7:56 AM Ticket #198 (Change source files to UTF-8) closed by
- fixed: (In [1024]) Fixes #198: Change source files to UTF-8
- 7:56 AM Changeset [1024] by
- Fixes #198: Change source files to UTF-8
- 7:51 AM Ticket #198 (Change source files to UTF-8) updated by
-
Status changed
- 12:35 AM Changeset [1023] by
- Addresses #197. In anticipation of abort functionality the underlying …
- 12:35 AM Ticket #197 (net.sf.basedb.normalizers: Add abort functionaly to qQuantileNormalizers) updated by
- (In [1023]) Addresses #197. In anticipation of abort functionality the …
Apr 6, 2009:
- 7:16 PM Ticket #184 (qQuantileNormalizer should update progress bar) closed by
- fixed: (In [1022]) Fixes #184. Progress bar is updated in the abstract class only.
- 7:16 PM Changeset [1022] by
- Fixes #184. Progress bar is updated in the abstract class only.
- 2:56 PM Ticket #203 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 2:56 PM Ticket #202 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 2:56 PM Ticket #201 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 2:55 PM Ticket #200 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 2:55 PM Ticket #199 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 2:55 PM Ticket #198 (Change source files to UTF-8) created by
- See http://base.thep.lu.se/ticket/1290
- 9:59 AM Ticket #189 (Add toolbar extension examples) closed by
- fixed: (In [1021]) Fixes #189: Add toolbar extension examples
- 9:59 AM Changeset [1021] by
- Fixes #189: Add toolbar extension examples
Apr 3, 2009:
- 11:55 AM Ticket #197 (net.sf.basedb.normalizers: Add abort functionaly to qQuantileNormalizers) updated by
-
Status changed
- 11:55 AM Ticket #197 (net.sf.basedb.normalizers: Add abort functionaly to qQuantileNormalizers) created by
- The underlying abstract plug-in class must be changed as well.
- 11:53 AM Changeset [1020] by
- Addresses #118 and fixes #187.
- 11:53 AM Tickets #118,187 batch updated by
- fixed: (In [1020]) Addresses #118 and fixes #187.
- 11:52 AM Ticket #187 (qQuantileNormalizer should allow user to select the normaliztion ...) updated by
-
Summary changed
- 11:42 AM Ticket #126 (Illumina SNP ... files are now supported (by the BASEcore) in the BASE ...) updated by
-
Description changed
- 11:41 AM Ticket #196 (Illumina methylation arrays ...) created by
- Illumina methylation arrays are 2-channel data (like Illumina SNP …
- 10:38 AM Ticket #195 (net.sf.basedb.normalizers: Normalizers should ask user for how to ...) created by
- The Average Normalization plug-in always use the geometric mean but …
- 9:14 AM Changeset [1019] by
- References #189: Add toolbar extension examples Added "Annotation …
- 9:14 AM Ticket #189 (Add toolbar extension examples) updated by
- (In [1019]) References #189: Add toolbar extension examples Added …
- 8:12 AM Ticket #189 (Add toolbar extension examples) updated by
-
Description changed
Apr 2, 2009:
Mar 31, 2009:
- 1:12 PM Ticket #194 (Default export file names should be more unique) created by
- I am using the brilliant MeV extension. BASE creates the TDMS file …
- 11:11 AM Changeset [1018] by
- Changes for future release 1.3
- 11:09 AM Milestone MEV Launcher v1.2 completed
- Bug fixes for MEV Launcher 1.1. See [wiki:net.sf.basedb.mev MEV …
- 11:09 AM net.sf.basedb.mev edited by
- Releasing MeV Launcher 1.2 (diff)
- 11:05 AM Changeset [1017] by
- Tagging MeV Launcher 1.2
- 11:04 AM Changeset [1016] by
- Preparing release of MeV Launcher 1.2
- 10:57 AM Ticket #192 (MeV unable to launch appplication ... class not found exception) closed by
- duplicate: Seems like this problem was fixed by #193.
- 9:03 AM Changeset [1015] by
- Fixes #193: Use one JNLP file for each pre-signed JAR file
- 9:03 AM Ticket #193 (Use one JNLP file for each pre-signed JAR file) closed by
- fixed: (In [1015]) Fixes #193: Use one JNLP file for each pre-signed JAR file
- 8:08 AM Ticket #193 (Use one JNLP file for each pre-signed JAR file) created by
- According to the JNLP specification all JAR:s that are referenced in a …
- 7:58 AM Ticket #192 (MeV unable to launch appplication ... class not found exception) updated by
- It doesn't work on the music Mac here either, but I get a different …
Mar 30, 2009:
- 6:40 PM Changeset [1014] by
- Fixes #191. Added standard options and also assay annotation data file …
- 6:40 PM Ticket #191 (net.sf.basedb.normalizers: qQN should support standard options ...) closed by
- fixed: (In [1014]) Fixes #191. Added standard options and also assay …
- 6:39 PM Ticket #191 (net.sf.basedb.normalizers: qQN should support standard options ...) updated by
-
Description changed
- 6:32 PM Ticket #192 (MeV unable to launch appplication ... class not found exception) updated by
- Replying to nicklas: > goose.jar and mail.jar are included …
- 6:17 PM Ticket #192 (MeV unable to launch appplication ... class not found exception) updated by
- goose.jar and mail.jar are included in the jnlp file generated by the …
- 3:24 PM Ticket #192 (MeV unable to launch appplication ... class not found exception) created by
- I cannot launch MeV with the BASE 2.11.0. I have pasted the stack …
- 10:48 AM PluginDownload edited by
- (diff)
- 10:47 AM Changeset [1013] by
- Preparing for future release 1.2
- 10:46 AM Milestone MEV Launcher v1.1 completed
- This release of the MEV Launcher is focused on upgrading to MeV 4.3. …
- 10:45 AM Ticket #162 (Upgrade to MeV 4.3) closed by
- fixed
- 10:45 AM net.sf.basedb.mev edited by
- Releasing MeV Launcher 1.1 (diff)
- 10:38 AM Changeset [1012] by
- Tagging version 1.1
- 10:37 AM Changeset [1011] by
- Preparing release 1.1
- 10:00 AM Changeset [1010] by
- References #162: Upgrade to MeV 4.3 Fixes some problems when starting …
- 10:00 AM Ticket #162 (Upgrade to MeV 4.3) updated by
- (In [1010]) References #162: Upgrade to MeV 4.3 Fixes some problems …
- 9:59 AM Ticket #191 (net.sf.basedb.normalizers: qQN should support standard options ...) updated by
-
Status changed
- 9:59 AM Ticket #191 (net.sf.basedb.normalizers: qQN should support standard options ...) created by
-
--versionand--help - 9:57 AM Changeset [1009] by
- Removed non-used configure options inherited from the WeNNI package.
- 9:56 AM Ticket #190 (net.sf.basedb.normalizers: Add target that tries to build qQN if requested) updated by
-
Status, Type changed
- 9:56 AM Ticket #190 (net.sf.basedb.normalizers: Add target that tries to build qQN if requested) created by
- Something like 'ant qQN' should try to create an qQN binary and place …
- 9:40 AM Ticket #186 (qQuantileNormalizer method storeResult must be reimplemented) closed by
- fixed: As of changeset:1000 storeResult takes a SpotBatcher that is used to …
- 9:36 AM Ticket #187 (qQuantileNormalizer should allow user to select the normaliztion ...) updated by
-
Status changed
- 8:31 AM Changeset [1008] by
- Clarified where the recommended install directory is located.
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