Timeline
Dec 4, 2008:
- 7:32 PM Ticket #155 (New error handling option for duplicated features when creating array ...) updated by
- No it is not possible. And it doesn't matter. There can only be one …
- 6:20 PM Changeset [874] by
- refs #71 Adding some targets for maintainer to check that everything …
- 6:20 PM Tickets #156,71 batch updated by
- (In [874]) refs #71 Adding some targets for maintainer to check that …
- 6:08 PM Ticket #156 (Compilation fails in base2 test phase of 'make maintainer-check') created by
- Relates to ticket:63 With all the automagic download I thought a …
- 5:07 PM Ticket #155 (New error handling option for duplicated features when creating array ...) updated by
- Is it possible to call the core importer twice, first with the …
- 2:32 PM Ticket #155 (New error handling option for duplicated features when creating array ...) closed by
- wontfix: The duplication control/skipping is happening in the core and it can …
- 1:59 PM Ticket #155 (New error handling option for duplicated features when creating array ...) updated by
- For clarity. The additional error handling option would be to skip the …
- 1:47 PM Ticket #155 (New error handling option for duplicated features when creating array ...) created by
- A bgx file contains array design information for Illumina arrays. The …
- 1:22 PM Ticket #71 (write HowToRelease document for se.lu.thep.WeNNI) updated by
- I think it is doable. Let me try and I come back to this later today.
- 12:04 PM Ticket #154 (wenni compiling WeNNI.java requires -encoding option to the compiler) updated by
-
Status, Owner changed
- 12:04 PM Ticket #154 (wenni compiling WeNNI.java requires -encoding option to the compiler) created by
- Since some of the strings in WeNNI.java contain international …
- 11:53 AM Changeset [873] by
- Fixes #151: Use two queries instead of one in DetectionPValue.run() method
- 11:53 AM Ticket #151 (Use two queries instead of one in DetectionPValue.run() method) closed by
- fixed: (In [873]) Fixes #151: Use two queries instead of one in …
- 8:42 AM Ticket #71 (write HowToRelease document for se.lu.thep.WeNNI) updated by
- Replying to peter: > Replying to jari: > > …
Dec 3, 2008:
- 11:40 PM Changeset [872] by
- TODO is included in dist by default, so no need to add it explicitly
- 11:29 PM Changeset [871] by
- install-exec-local didn't respect DESTDIR. Copying code generated by …
- 11:19 PM Changeset [870] by
- calling tar through script 'missing'. refs #153.
- 11:19 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- (In [870]) calling tar through script 'missing'. refs #153.
- 11:05 PM Changeset [869] by
- Adding uninstall-plugin target Using install target for install-plugin …
- 10:43 PM Changeset [868] by
- JAVACFLAGS was a classpath! Correcting and introduced a proper …
- 10:40 PM Changeset [867] by
- Typo
- 7:40 PM Changeset [866] by
- simplify syntax of install-plugin targets by using install target
- 6:33 PM Changeset [865] by
- adding uninstall targets in base2. Should probably be added in other …
- 4:45 PM Changeset [864] by
- refs #153 - using autoreconf in bootstrap. Did not add '--force' …
- 4:45 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- (In [864]) refs #153 - using autoreconf in bootstrap. Did not add …
- 4:04 PM se.lu.onk.IlluminaSNPNormalization edited by
- (diff)
- 3:53 PM se.lu.onk.IlluminaSNPNormalization edited by
- (diff)
- 3:51 PM se.lu.onk.IlluminaSNPNormalization edited by
- (diff)
- 3:47 PM se.lu.onk.IlluminaSNPNormalization edited by
- (diff)
- 2:38 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- The problem is the bootstrap. I forgot that we have such an old …
- 12:58 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- And now I get, with no changes made except rerunning bootstrap and …
- 11:21 AM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- I get […] and JAR is not set. The new m4 directory is not …
Dec 2, 2008:
- 11:24 PM Changeset [863] by
- Addresses #50. Working on the Java wrapper.
- 11:24 PM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
- (In [863]) Addresses #50. Working on the Java wrapper.
- 11:22 PM Changeset [862] by
- Cleanup of the abstract super class. More to come …
- 11:21 PM Changeset [861] by
- Using BASE 2.9 API
- 9:31 PM Changeset [860] by
- adding tests for javac and jar - refs #153
- 9:31 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- (In [860]) adding tests for javac and jar - refs #153
- 9:31 PM Changeset [859] by
- adding tests for javac and jar - refs #153
- 9:31 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) updated by
- (In [859]) adding tests for javac and jar - refs #153
- 4:33 PM Changeset [858] by
- Addresses #50. Working with BASE-plugin communication issues and …
- 4:33 PM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
- (In [858]) Addresses #50. Working with BASE-plugin communication …
- 3:57 PM Ticket #153 (Autoconf issues in se.lu.thep.WeNNI) created by
- Checks for used programs should be added jar, javac, tar, wget
- 12:36 PM Ticket #71 (write HowToRelease document for se.lu.thep.WeNNI) updated by
- Replying to jari: > There are three states ... probably …
- 11:29 AM Ticket #151 (Use two queries instead of one in DetectionPValue.run() method) updated by
-
Status changed
- 9:06 AM Ticket #63 (make distcheck should work) updated by
-
Owner, Status changed
- 9:05 AM Changeset [857] by
- Refs #50. AM_CONDITIONALs must be available for all build states.
- 9:05 AM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
- (In [857]) Refs #50. AM_CONDITIONALs must be available for all build …
- 9:04 AM Ticket #71 (write HowToRelease document for se.lu.thep.WeNNI) updated by
-
There are three states ... probably three different
make distchecks … - 8:55 AM Changeset [856] by
- Refs #50 and #63. All WeNNI build options now works. make distcheck …
- 8:55 AM Tickets #50,63 batch updated by
- (In [856]) Refs #50 and #63. All WeNNI build options now works. make …
- 7:39 AM Changeset [855] by
- Removed stray tabs
- 12:33 AM Ticket #53 (update INSTALL) closed by
- fixed: (In [854]) Fixes #53
- 12:33 AM Changeset [854] by
- Fixes #53
- 12:00 AM Ticket #53 (update INSTALL) updated by
-
Owner, Status changed
Dec 1, 2008:
- 11:59 PM Ticket #152 (Setting bindir in configure.ac destroys make distcheck) closed by
- fixed: (In [853]) Fixes #152. Added custom target 'install-plugin' that …
- 11:59 PM Changeset [853] by
- Fixes #152. Added custom target 'install-plugin' that parallels 'install'.
- 10:24 PM Changeset [852] by
- even some more typos - huuh
- 10:20 PM Changeset [851] by
- corrected some typos
- 10:13 PM Changeset [850] by
- forgot to save this file prior ci r849
- 10:01 PM Changeset [849] by
- defining state variable in config.h and when not in base1 mode slice …
- 9:23 PM Ticket #152 (Setting bindir in configure.ac destroys make distcheck) updated by
-
Owner, Status changed
- 9:23 PM Changeset [848] by
- Refs #50. Using proper PluginUtilities URL for download
- 9:23 PM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
- (In [848]) Refs #50. Using proper PluginUtilities URL for download
- 8:55 PM Ticket #71 (write HowToRelease document for se.lu.thep.WeNNI) updated by
- When this ticket is fixed remember these things from configre.ac …
- 8:10 PM Changeset [847] by
- Renamed package to PluginUtilities.
- 8:06 PM net.sf.basedb.pluginutilties created by
- First version of PluginUtilities wiki page.
- 7:50 PM Ticket #152 (Setting bindir in configure.ac destroys make distcheck) created by
- Either create customized install directives or use --bindir for …
- 7:41 PM Changeset [846] by
- fixed so test can be run outside 'make check'
- 7:20 PM Changeset [845] by
- Correcting dangerous distclean directive that removed revision …
- 5:24 PM Changeset [844] by
- Addresses #50, #53. Automatic download of required components. Using …
- 5:24 PM Tickets #50,53 batch updated by
- (In [844]) Addresses #50, #53. Automatic download of required …
- 10:35 AM Changeset [843] by
- Fixed indentation issues and outputting more information to user.
- 10:21 AM Changeset [842] by
- Typo
Nov 30, 2008:
- 12:46 AM Changeset [841] by
- avoid setting CPPFLAGS and friends in configure.ac and updating …
Nov 29, 2008:
- 10:23 PM Changeset [840] by
- added ACTION-IF-NOT-FOUND in AC_SEARCH_LIBS, in other words, configure …
- 10:12 PM Changeset [839] by
- removing warning - use C++ macro not C
- 2:28 AM Changeset [838] by
- typo
Nov 28, 2008:
- 8:12 PM Changeset [837] by
- removing annoying Automake warning that %-style pattern rules are a …
- 6:27 PM Changeset [836] by
- refs #63. Fixed vpath issues in test so make distcheck no works in …
- 6:27 PM Ticket #63 (make distcheck should work) updated by
- (In [836]) refs #63. Fixed vpath issues in test so make distcheck no …
- 6:03 PM Ticket #149 (Error: The query has already been executed (Illumina detection P-value ...) closed by
- invalid: I think this error has something to do with a mix of Illumina package …
- 5:55 PM Changeset [835] by
- Since changeset:834 there is no need to check for sed
- 4:36 PM Ticket #63 (make distcheck should work) updated by
- (In [834]) Triggered by [826]. There were some problems with the …
- 4:36 PM Changeset [834] by
- Triggered by [826]. There were some problems with the Makefile.am, so …
- 2:15 PM Changeset [833] by
- Fixes #150: Fix layout of DetectionPValue.java
- 2:15 PM Ticket #150 (Fix layout of DetectionPValue.java) closed by
- fixed: (In [833]) Fixes #150: Fix layout of DetectionPValue.java
- 2:06 PM Ticket #150 (Fix layout of DetectionPValue.java) updated by
-
Status changed
- 2:04 PM Ticket #151 (Use two queries instead of one in DetectionPValue.run() method) created by
- The plug-in uses a single query instance to get data from …
- 1:58 PM Ticket #150 (Fix layout of DetectionPValue.java) created by
- The layout in the file is a mess and seems to not follow any known …
- 1:55 PM Ticket #149 (Error: The query has already been executed (Illumina detection P-value ...) updated by
- The stacktrace doesn't make sense. It doesn't match the 1.0 or the 1.1 …
- 1:37 PM Ticket #149 (Error: The query has already been executed (Illumina detection P-value ...) updated by
- net.sf.basedb.core.BaseException: The query has already been executed. …
- 1:36 PM Ticket #149 (Error: The query has already been executed (Illumina detection P-value ...) created by
- When trying to run plugin 'Illumina detection P-value calculation' I …
Nov 27, 2008:
- 11:32 PM Changeset [832] by
- Resetting svndigest:ignore property, testing of svndigest stats …
- 11:22 PM Changeset [831] by
- Removed bindir and cleaned up indentation.
- 10:53 PM Changeset [830] by
- Deleting svndigest:ignore property to test svndigest stats counting.
- 9:44 PM Changeset [829] by
- Setting svndigest:ignore on copies of trunks to avoid multiple counting.
- 9:30 PM Ticket #54 (update README) closed by
- fixed: (In [828]) Fixes #54
- 9:30 PM Changeset [828] by
- Fixes #54
- 8:35 PM Ticket #55 (update ChangeLog) closed by
- fixed
- 4:03 PM PluginDownload edited by
- (diff)
- 4:02 PM PluginDownload edited by
- Moved WeNNI into 1.2 plug-in table. (diff)
- 12:39 AM Changeset [827] by
- Added check for SED and some more changelog entries.
- 12:32 AM Changeset [826] by
- Fixes #148.
- 12:32 AM Ticket #148 (BASE1 configuration: execname should be set automatically during build) closed by
- fixed: (In [826]) Fixes #148.
Nov 26, 2008:
- 11:42 PM Changeset [825] by
- Fixes #146.
- 11:42 PM Ticket #146 (Change references to lev.thep.lu.se to something more appropriate) closed by
- fixed: (In [825]) Fixes #146.
- 11:17 PM Ticket #145 (GPL3 for WeNNI) closed by
- fixed: (In [824]) Fixes #145.
- 11:17 PM Changeset [824] by
- Fixes #145.
- 5:43 PM se.lu.thep.WeNNI edited by
- fixing the query syntax (diff)
- 4:38 PM se.lu.thep.WeNNI edited by
- Updated the TODO list (diff)
- 4:30 PM Ticket #54 (update README) updated by
-
Status, Owner changed
- 4:30 PM Ticket #55 (update ChangeLog) updated by
-
Status, Owner changed
- 4:28 PM Ticket #52 (Add educational material and use cases.) closed by
- wontfix
- 4:27 PM Ticket #148 (BASE1 configuration: execname should be set automatically during build) updated by
-
Status changed
- 4:27 PM Ticket #148 (BASE1 configuration: execname should be set automatically during build) created by
- As it is now a default name is used. basedir or plugin dir shuold be …
- 4:25 PM Ticket #64 (configure does not find basefile.h) closed by
- fixed: Fixed in changeset:821
- 4:23 PM Changeset [823] by
- Addresses #53 and fixes #60.
- 4:23 PM Tickets #53,60 batch updated by
- fixed: (In [823]) Addresses #53 and fixes #60.
- 4:20 PM Changeset [822] by
- Updated change information and default installation paths
Nov 25, 2008:
- 5:38 PM Changeset [821] by
- Build of stand-alone and base1 modes work. base2 still to be finalized.
- 5:29 PM Changeset [820] by
- Added note saying that repository checkout requires ./bootstrap.
Nov 24, 2008:
- 10:56 AM Changeset [819] by
- Changed u_int to unsigned int to make code pass compilation on my Mac …
Nov 23, 2008:
- 9:45 PM Ticket #147 (WeNNI for BASE2 should support the automatic plug-in installation ...) created by
- 8:46 PM Ticket #146 (Change references to lev.thep.lu.se to something more appropriate) updated by
-
Status changed
- 8:46 PM Ticket #146 (Change references to lev.thep.lu.se to something more appropriate) created by
- 8:45 PM Ticket #145 (GPL3 for WeNNI) updated by
-
Status, Owner changed
- 8:45 PM Ticket #145 (GPL3 for WeNNI) created by
- 8:44 PM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
-
Status changed
- 8:44 PM Ticket #50 (create a BASE2 plug-in for se.lu.thep.WeNNI) updated by
-
Owner, Status changed
Nov 21, 2008:
- 9:20 PM Changeset [818] by
- First commit of the AbstractRunBinaryPlugin class. Still very …
- 9:17 PM Changeset [817] by
- Fixing typo.
- 9:25 AM Ticket #144 (R plug-in framework) updated by
-
Owner, Component changed
- 9:24 AM Ticket #144 (R plug-in framework) created by
- A framework to support running R script should be created. This would …
Nov 19, 2008:
- 3:50 PM Changeset [816] by
- References #143 Removed unnecessary comments.
- 3:50 PM Ticket #143 (Illumina plug-in package installer requests wrong permissions) updated by
- (In [816]) References #143 Removed unnecessary comments.
- 3:49 PM Changeset [815] by
- Fixes #143 Illumina plug-in package installer requests wrong permissions
- 3:49 PM Ticket #143 (Illumina plug-in package installer requests wrong permissions) closed by
- fixed: (In [815]) Fixes #143 Illumina plug-in package installer requests …
- 2:27 PM Ticket #143 (Illumina plug-in package installer requests wrong permissions) updated by
-
Status changed
- 2:22 PM Ticket #143 (Illumina plug-in package installer requests wrong permissions) created by
- If only using the permissions requested by the plug-in, the jobs will …
- 11:08 AM Changeset [814] by
- References #142. Removed problematic character. For historical reasons …
- 11:08 AM Ticket #142 (Illumina installer plugin cannot be installed in some cases) updated by
- (In [814]) References #142. Removed problematic character. For …
- 9:37 AM Changeset [813] by
- Fixes #142 Illumina installer plugin cannot be installed in some cases
- 9:37 AM Ticket #142 (Illumina installer plugin cannot be installed in some cases) closed by
- fixed: (In [813]) Fixes #142 Illumina installer plugin cannot be installed in …
- 8:22 AM Ticket #142 (Illumina installer plugin cannot be installed in some cases) updated by
-
Status changed
- 8:22 AM Ticket #142 (Illumina installer plugin cannot be installed in some cases) created by
- Installing Illumina plugin installer fails when either doing it …
Nov 12, 2008:
- 5:07 PM SubversionCheckout edited by
- (diff)
- 8:42 AM Changeset [812] by
- Creating a new package.
Nov 11, 2008:
- 9:21 AM Ticket #141 (Rank invariant should not support configurations) updated by
-
Description changed
- 9:18 AM Ticket #141 (Rank invariant should not support configurations) closed by
- fixed: (In [811]) Fixes #141 Rank invariant should not support …
- 9:18 AM Changeset [811] by
- Fixes #141 Rank invariant should not support configurations. The …
- 9:13 AM Ticket #141 (Rank invariant should not support configurations) updated by
-
Status changed
- 9:04 AM Ticket #141 (Rank invariant should not support configurations) created by
- The rank-invariant plug-in does not override the …
Nov 10, 2008:
- 1:18 PM net.sf.basedb.mev edited by
- Added information about required BASE version to download table (diff)
- 1:17 PM net.sf.basedb.ftp edited by
- Added information about required BASE version to download table (diff)
- 1:16 PM net.sf.basedb.examples.webservices edited by
- Added information about required BASE version to download table (diff)
- 1:16 PM net.sf.basedb.examples.plugins edited by
- Added information about required BASE version to download table (diff)
- 1:15 PM net.sf.basedb.examplecode edited by
- Added information about required BASE version to download table (diff)
- 1:13 PM net.sf.basedb.illumina edited by
- Added information about required BASE version to download table (diff)
- 8:50 AM se.lu.onk.BAFsegmentation edited by
- (diff)
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