Timeline
Oct 31, 2006:
- 11:03 PM Changeset [2849] by
- Fixed typos in plug-in descriptions.
- 5:10 PM Milestone BASE 2.1 completed
- This is the next release of BASE. We do not expect to release more …
- 4:56 PM Changeset [2848] by
- Updated information on how to publish a new release.
- 4:39 PM DownloadPage edited by
- Releasing v2.1 (diff)
- 4:19 PM Changeset [2847] by
- New bug fix branch for 2.1
- 4:18 PM Changeset [2846] by
- Tagging version 2.1
- 4:17 PM Changeset [2845] by
- Bumped version number in <description> tag.
- 4:14 PM Changeset [2844] by
- Removed stray paragraph.
- 4:12 PM Ticket #418 (Propagate the build number to the source package.) updated by
-
Component, Status changed
- 4:11 PM Ticket #418 (Propagate the build number to the source package.) created by
- Bob says: The build number in the dialogue box is "#0" in my build of …
- 4:05 PM Ticket #349 (Callback for events to plugins) updated by
-
Milestone changed
- 4:03 PM Ticket #293 (allow queuing of uploads) closed by
- duplicate: duplicate of #408
- 4:03 PM Ticket #278 (Trying to create a new plate.) updated by
-
Milestone changed
- 4:02 PM Ticket #278 (Trying to create a new plate.) closed by
- worksforme
- 3:57 PM Ticket #405 (Highlight function in plot tool) updated by
-
Milestone changed
- 3:54 PM Ticket #374 (Restoring a Bioassayset or Transformation restores all child bioassay ...) updated by
-
Milestone changed
- 3:49 PM Ticket #172 (Add externalId property to annotation type) updated by
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Owner changed
- 3:47 PM Ticket #146 (Add help text to the web gui) updated by
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Owner changed
- 3:47 PM Ticket #132 (Write documentation: 3c) Internals of the core API - Transaction handling) updated by
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Milestone changed
- 3:46 PM Ticket #132 (Write documentation: 3c) Internals of the core API - Transaction handling) updated by
-
Milestone changed
- 3:45 PM Ticket #108 (Logging the change history of an item) updated by
-
Milestone changed
- 3:45 PM Ticket #98 ("Excluded" items are still included if a list is exported) updated by
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Owner, Milestone changed
- 3:43 PM Ticket #412 (Fix build.xml to make it more developer-friendly) updated by
-
Owner, Milestone changed
- 3:42 PM Ticket #411 (Extending compressed file support and storage) updated by
-
Milestone changed
- 3:42 PM Ticket #408 (Implement FTP server) updated by
- We are waiting for proof of concept from the Proteios team, …
- 3:39 PM Ticket #383 (Should more docs be shipped with the binary package?) updated by
- Should 'tomcat_with_java_1.5.txt' be removed from repo?
- 3:36 PM Ticket #378 (Creation of configurations for plug-ins that do not need configs are ...) updated by
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Owner, Version, Milestone changed
- 3:33 PM Ticket #376 (Better system for checking which plugins that can be executed in a ...) updated by
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Milestone changed
- 3:32 PM Ticket #375 (Shared items: the shareness of items should be listed in the ...) updated by
-
Milestone, Summary changed
- 3:31 PM Ticket #372 (Check Affymetrix CEL files vs Affymetrix Array Design during file upload) updated by
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Owner changed
- 3:30 PM Ticket #369 (Display of ExperimentalFactor and associated Values from Experiment Page) updated by
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Owner changed
Depends on ticket:339 - 3:29 PM Ticket #365 (Use java web start to launch plug-ins) updated by
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Status, Owner, Milestone changed
Relates to ticket:10 - 3:28 PM Ticket #353 (Create connectivity from R/BioConductor to BASE) updated by
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Status changed
- 3:27 PM Ticket #352 (Connect parts of the TM4 software suite to BASE) updated by
-
Status changed
Relates to ticket:10 - 3:26 PM Ticket #352 (Connect parts of the TM4 software suite to BASE) updated by
-
Owner, Milestone changed
- 3:22 PM Ticket #298 (Add administrator page for viewing disk usage statistics) updated by
-
Priority, Owner changed
- 3:19 PM Ticket #215 (Incorrect use of DynamicSpotQuery in table view, plot function, filter ...) updated by
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Description, Milestone changed
- 3:17 PM Ticket #397 (Use the FindBugs program to check the BASE 2 code) updated by
-
Milestone changed
- 3:13 PM Ticket #10 (Analysis: Hierarchical clustering) updated by
- Clustering support will be added through TM4s MeV software. Currently …
- 3:12 PM Ticket #10 (Analysis: Hierarchical clustering) updated by
-
Version, Milestone changed
- 2:31 PM Ticket #408 (Implement FTP server) updated by
- The FTP server would be very helpful for us too (Bob@VectorBase).
- 2:31 PM Changeset [2843] by
- Removed unused imports
- 2:30 PM Changeset [2842] by
- Import of plugin configurations is now displayed by progress reporter
- 2:20 PM Changeset [2841] by
- Fixed typo.
- 2:18 PM Changeset [2840] by
- Changed default sharing of plug-ins. Alphabetized plug-in list.
- 2:06 PM Changeset [2839] by
- Base1Executer throws an exception when average on gene is true. This …
- 2:02 PM Ticket #312 (ReporterType import) closed by
- fixed: (In [2838]) Fixes #312
- 2:02 PM Changeset [2838] by
- Fixes #312
- 12:29 PM Changeset [2837] by
- Exporting reporter ids. Made query code more robust for changes.
- 11:40 AM Ticket #410 (The inner class Base1PluginExecutor.PosRep should implement the ...) closed by
- fixed: (In [2836]) Fixes #410
- 11:40 AM Changeset [2836] by
- Fixes #410
- 11:28 AM Changeset [2835] by
- Removed comment header from MeV tab export. MeV does not support …
- 11:27 AM Ticket #409 (Possible NullPointerException in Base1PluginExecutor) updated by
- (In [2834]) Base1executer will teminate if it cant find any …
- 11:27 AM Changeset [2834] by
- Base1executer will teminate if it cant find any configfile. fixes #409
- 11:24 AM Changeset [2833] by
- Removed debug output.
- 11:18 AM Ticket #409 (Possible NullPointerException in Base1PluginExecutor) closed by
- fixed: (In [2832]) Fixes #409
- 11:18 AM Changeset [2832] by
- Fixes #409
- 11:18 AM Changeset [2831] by
- Plugin configuration exporter now uses Integer parameter type for …
- 11:13 AM Changeset [2830] by
- Fixed inconsistencies with bioassay set spot view and exported data. …
- 9:53 AM Changeset [2829] by
- Fixed incorrect permissions for plugin configuration exporter.
- 9:33 AM Ticket #336 (Install common file formats with main installation) closed by
- fixed: (In [2828]) Fixes #336 Install common file formats with main …
- 9:33 AM Changeset [2828] by
- Fixes #336 Install common file formats with main installation. Problem …
- 9:28 AM Changeset [2827] by
- Updated requested permissions for export plugins
- 9:12 AM Changeset [2826] by
- Fixed link to incorrect JavaScript function
- 8:54 AM Changeset [2825] by
- Added BioAssaySetExporter plugin to Install.java.
- 8:47 AM Changeset [2824] by
- Added BioAssaySetExporter class.
- 8:35 AM Ticket #350 (Switch to another user functionality) updated by
- (In [2823]) References #350: Switch to another user functionality …
- 8:35 AM Changeset [2823] by
- References #350: Switch to another user functionality Missed to add …
- 8:31 AM Ticket #417 (Verify that schema version of the database match the core API) closed by
- fixed: (In [2822]) Fixes #417: Verify that schema version of the database …
- 8:31 AM Changeset [2822] by
- Fixes #417: Verify that schema version of the database match the core API
- 8:13 AM Ticket #417 (Verify that schema version of the database match the core API) updated by
-
Status, Milestone changed
Oct 30, 2006:
- 7:09 PM Changeset [2821] by
- Added getVersionString utility function.
- 7:08 PM Changeset [2820] by
- Improved getting started doc.
- 6:25 PM Changeset [2819] by
- Fixed svn:keywords property.
- 2:58 PM Ticket #351 (External job server usage) closed by
- fixed
- 2:55 PM Ticket #350 (Switch to another user functionality) closed by
- fixed: (In [2818]) Fixes #350: Switch to another user functionality
- 2:55 PM Changeset [2818] by
- Fixes #350: Switch to another user functionality
- 2:54 PM Ticket #350 (Switch to another user functionality) updated by
-
Milestone, Status changed
- 2:54 PM Ticket #417 (Verify that schema version of the database match the core API) created by
- The core should verify that the database schema version matches what …
- 12:10 PM Ticket #416 (Only show plugin-buttons when the logged in user has access to at ...) closed by
- fixed: (In [2817]) Fixes #416: Only show plugin-buttons when the logged in …
- 12:10 PM Changeset [2817] by
- Fixes #416: Only show plugin-buttons when the logged in user has …
- 9:41 AM Ticket #416 (Only show plugin-buttons when the logged in user has access to at ...) updated by
-
Status changed
- 9:41 AM Ticket #416 (Only show plugin-buttons when the logged in user has access to at ...) created by
- The web interface displays plugin buttons (Import/Export/Run plugin) …
- 9:36 AM Changeset [2816] by
- Fixed issues with proxy initialisation from statless session.
Oct 27, 2006:
- 2:32 PM Ticket #339 (Protocol parameters) updated by
-
Status changed
- 2:10 PM Changeset [2815] by
- References #215: Incorrect use of DynamicSpotQuery in table view, plot …
- 2:10 PM Ticket #215 (Incorrect use of DynamicSpotQuery in table view, plot function, filter ...) updated by
- (In [2815]) References #215: Incorrect use of DynamicSpotQuery in …
- 1:38 PM Changeset [2814] by
- Wrong return type for getColumn()
- 1:33 PM Ticket #415 (Can't select avg option in Experiment explorer when using Postgres) closed by
- fixed: (In [2813]) Fixes #415: Can't select avg option in Experiment explorer …
- 1:33 PM Changeset [2813] by
- Fixes #415: Can't select avg option in Experiment explorer when using …
- 12:58 PM Ticket #414 (Experiment explorer not working in Postgres) closed by
- fixed: (In [2812]) Fixes #414: Experiment explorer not working in Postgres
- 12:58 PM Changeset [2812] by
- Fixes #414: Experiment explorer not working in Postgres
- 12:18 PM Ticket #415 (Can't select avg option in Experiment explorer when using Postgres) created by
- Got the followin error message: {{{ERROR: column "spt.position" must …
- 11:58 AM Ticket #414 (Experiment explorer not working in Postgres) updated by
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Component changed
We must make sure that if we use the DISTINCT keyword the columns that … - 11:54 AM Ticket #414 (Experiment explorer not working in Postgres) updated by
-
Description, Status changed
- 11:53 AM Ticket #414 (Experiment explorer not working in Postgres) created by
- […] SQL that was generated: […] Apparently, we are ordering by …
Oct 26, 2006:
- 12:05 PM Changeset [2811] by
- Clear hidden 'exclude' filter that was set by popups
- 12:03 PM Changeset [2810] by
- Improving getting started doc.
- 10:59 AM Changeset [2809] by
- Preload features using a stateless session to decrease memory usage.
- 10:07 AM Milestone BASE 2.0.3 completed
- Issues to resolve for the next minor release.
- 10:07 AM Ticket #399 (Losing Bioassay table in EExplorer when browsing positions) updated by
-
Milestone changed
- 10:06 AM Ticket #398 (Version information in the "About" button) updated by
-
Milestone changed
- 10:05 AM Changeset [2808] by
- Removed obsolete branch 2.0.2.
- 10:04 AM DownloadPage edited by
- 2.0.3 released. (diff)
- 9:38 AM Changeset [2807] by
- Tagging version 2.0.3
- 9:27 AM Changeset [2806] by
- Bumped version number to 2.0.3
- 9:05 AM Ticket #413 (Add support for Oracle) updated by
- 7. Analysing a table after a batch insert Another problem is to …
Oct 25, 2006:
- 11:12 PM Ticket #413 (Add support for Oracle) updated by
- 6. Subcontext names of current context settings is likely to cause …
- 11:08 PM Ticket #413 (Add support for Oracle) updated by
-
Description changed
5. TestPlateFlatFileImporter, TestRawDataFlatFileImporter, … - 10:57 PM Ticket #413 (Add support for Oracle) updated by
- 4. TestExperiment fails […] Oracle has no JOIN or LEFT JOIN …
- 10:54 PM Ticket #413 (Add support for Oracle) updated by
- 3. TestDbInfo fails […] It is very strange that this error …
- 10:46 PM Ticket #413 (Add support for Oracle) updated by
- 2. TestSample, TestExtract and TestLabeledExtract fails. They fail …
- 10:31 PM Ticket #413 (Add support for Oracle) updated by
- 1. Installation fails when installing web client. The problem is …
- 10:27 PM Ticket #413 (Add support for Oracle) created by
- The current implementation doesn't work with Oracle databases for a …
- 4:07 PM Ticket #381 (User with administrator rights cannot share items (files) to group Everyone) closed by
- worksforme
- 3:45 PM Ticket #407 (Lowess and Median ratio normalizations throws exceptions) closed by
- fixed: (In [2805]) fixes #407
- 3:45 PM Changeset [2805] by
- fixes #407
- 2:54 PM Changeset [2804] by
- Fixed problem with databases (ie. Postgres) that throws exceptions …
- 1:09 PM Ticket #412 (Fix build.xml to make it more developer-friendly) created by
- Currently there are issues with the location and naming of …
- 1:02 PM Ticket #411 (Extending compressed file support and storage) updated by
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Type changed
- 1:02 PM Ticket #411 (Extending compressed file support and storage) created by
- It would be nice if BASE core support would include storage of …
- 11:56 AM Changeset [2803] by
- Changed decscription for default error handling to make it easier to …
- 11:41 AM Ticket #372 (Check Affymetrix CEL files vs Affymetrix Array Design during file upload) updated by
- When the verification has been implemented it should no longer be …
- 11:18 AM Changeset [2802] by
- Made it possible to select the requested permissions for a plugin
- 8:04 AM Ticket #366 (Batch upload using zip-files) updated by
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Description changed
- 1:12 AM Changeset [2801] by
- Improving getting started doc.
Oct 24, 2006:
- 4:11 PM Changeset [2800] by
- Spell checked and renamed file.
- 4:03 PM Changeset [2799] by
- Added info.
- 2:34 PM Changeset [2798] by
- Updated information about affymetrix in BASE.
- 2:13 PM Changeset [2797] by
- Fixed display of annotation title if the value is null
- 2:02 PM Changeset [2796] by
- Fixed reporter and position index problem when moving to next …
- 12:15 PM Ticket #410 (The inner class Base1PluginExecutor.PosRep should implement the ...) created by
- Using a PosMap as a key in a hashmap doesn't work unless the both …
- 12:08 PM Ticket #409 (Possible NullPointerException in Base1PluginExecutor) created by
- The following code throws NullPointerException if 'f' is null. […]
- 11:56 AM Changeset [2795] by
- Added 'final' keyword to static constants
- 11:55 AM Changeset [2794] by
- Fixed invalid comparison to Float.NaN
- 11:50 AM Changeset [2793] by
- Fixed possible null pointer exception
- 11:47 AM Changeset [2792] by
- Fixed possible null pointer exception
- 11:42 AM Changeset [2791] by
- Fixed possible null pointer exception
- 11:38 AM Changeset [2790] by
- Fixed division and error message
- 11:36 AM Changeset [2789] by
- Fixed invalid comparison to Float.NaN
- 11:33 AM Changeset [2788] by
- Fixed possible null pointer exception
- 11:32 AM Changeset [2787] by
- Added 'final' keyword to static constants
- 11:26 AM Changeset [2786] by
- Added 'final' keyword to static constants
- 11:12 AM Changeset [2785] by
- Fixed possible null pointer exception
- 11:09 AM Ticket #406 (Storing extended properties like information as annotations?) closed by
- wontfix
- 11:00 AM Changeset [2784] by
- Fixed possible null pointer exception.
- 10:52 AM Changeset [2783] by
- Check for quota membership by quota group is now correct.
- 10:47 AM Changeset [2782] by
- Keep the trimmed value
- 10:46 AM Changeset [2781] by
- Fixed possible null pointer exception.
- 10:43 AM Changeset [2780] by
- Removed unneeded call to SessionControl.getPluginPermissions()
- 9:35 AM Changeset [2779] by
- Addresses #406. Removed references to annotations system since it …
- 9:35 AM Ticket #406 (Storing extended properties like information as annotations?) updated by
- (In [2779]) Addresses #406. Removed references to annotations system …
- 8:55 AM Changeset [2778] by
- Fixes #401: Filter plugin - failed to correctly apply filter on M …
- 8:55 AM Ticket #401 (Filter plugin - failed to correctly apply filter on M values) updated by
- (In [2778]) Fixes #401: Filter plugin - failed to correctly apply …
- 8:51 AM Ticket #401 (Filter plugin - failed to correctly apply filter on M values) closed by
- fixed: (In [2777]) Fixes #401: Filter plugin - failed to correctly apply …
- 8:51 AM Changeset [2777] by
- Fixes #401: Filter plugin - failed to correctly apply filter on M …
- 8:45 AM Changeset [2776] by
- Fixed some problems with the permission filter not always working due …
- 8:42 AM Ticket #336 (Install common file formats with main installation) updated by
-
Status changed
- 8:26 AM Changeset [2775] by
- Allow to unshare to Group.EVERYONE even if user doesn't have …
- 8:19 AM Changeset [2774] by
- Fixed incorrect index causing javascript error when selecting a …
Oct 23, 2006:
- 5:24 PM Changeset [2773] by
- Reformatted new revision section.
- 5:11 PM Changeset [2772] by
- Added developer information on how to run a server agains a WC.
- 4:49 PM Changeset [2771] by
- Added target installprg and changed other targets accordingly. …
- 2:55 PM Changeset [2770] by
- Fixed incorrect filter when loading users.
- 2:42 PM Changeset [2769] by
- Minor changes to instructions and fixed some example plot images.
- 2:39 PM Changeset [2768] by
- Fixed javascript bug when array design isn't in a list.
- 2:00 PM Changeset [2767] by
- Impersonation shouldn't check permissions on client.
- 1:25 PM Changeset [2766] by
- Double click to move item types between lists
- 12:56 PM Changeset [2765] by
- Disable warning message since it is incorrect for numeric form names.
- 12:52 PM Changeset [2764] by
- Removed obsolete comment relating to RC releases of BASE 2.0.
- 12:18 PM Changeset [2763] by
- Removed obsolete branch. Superseded by source:/branches/2.0.2
- 12:04 PM Changeset [2762] by
- Do not set the focus for disabled elements (causes JavaScript error in IE).
- 11:57 AM Changeset [2761] by
- Removed call to non-existing JavaScript function.
- 11:51 AM Changeset [2760] by
- Fixed IE bugs in the "Test with file" feature.
- 10:00 AM Ticket #335 (Plugins for importing/exporting plugin configurations) closed by
- fixed
- 9:56 AM Changeset [2759] by
- Fixes #335 Plugins for importing/exporting plugin configurations
- 9:24 AM Ticket #408 (Implement FTP server) created by
- Batch uploading of files can be much easier with a FTP server than …
- 9:19 AM Ticket #403 (Make Bioassays and Bioassay sets annotatable) updated by
-
Milestone changed
- 9:19 AM Ticket #402 (Add shortcut button for 'current item', 'current experiment' and ...) updated by
-
Milestone changed
- 9:17 AM Ticket #407 (Lowess and Median ratio normalizations throws exceptions) updated by
- This bug was introduced when fixing ticket #380 in milestone 2.0.2.
- 9:15 AM Ticket #407 (Lowess and Median ratio normalizations throws exceptions) created by
- […] and […] The same problem has already been fixed in 2.1
- 8:23 AM Ticket #406 (Storing extended properties like information as annotations?) updated by
-
Owner changed
- 8:22 AM Ticket #406 (Storing extended properties like information as annotations?) updated by
-
Owner, Component changed
The annotation system is designed for flexibility. The extended …
Oct 22, 2006:
- 10:18 PM Changeset [2758] by
- Added information about extended properties.
- 10:18 PM Changeset [2757] by
- Added item to release recipe.
- 10:17 PM Changeset [2756] by
- Spell checked.
- 8:46 PM Ticket #406 (Storing extended properties like information as annotations?) created by
- There is reporter annotations stored as extended properties in the …
- 6:46 PM WikiProcessors edited by
- (diff)
- 6:46 PM TracCgi edited by
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- 6:46 PM TracChangeset edited by
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- 6:46 PM TracEnvironment edited by
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- 6:46 PM TracFastCgi edited by
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- 6:46 PM TracInterfaceCustomization edited by
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- 6:46 PM InterTrac created by
- 6:46 PM TracSupport edited by
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- 6:46 PM WikiHtml edited by
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- 6:46 PM CamelCase edited by
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- 6:46 PM TracAccessibility edited by
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- 6:46 PM TracAdmin edited by
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- 6:46 PM TracBackup edited by
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- 6:46 PM TracBrowser edited by
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- 6:46 PM TracImport edited by
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- 6:46 PM TracIni edited by
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- 6:46 PM TracInstall edited by
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- 6:46 PM TracLinks edited by
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- 6:46 PM TracModPython edited by
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- 6:46 PM TracNotification edited by
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- 6:46 PM TracPermissions edited by
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- 6:46 PM TracPlugins edited by
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- 6:46 PM TracQuery edited by
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- 6:46 PM TracReports edited by
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- 6:46 PM TracRoadmap edited by
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- 6:46 PM TracStandalone edited by
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- 6:46 PM TracTickets edited by
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- 6:46 PM WikiDeletePage edited by
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- 6:46 PM InterWiki created by
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- 6:46 PM WikiPageNames edited by
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- 6:46 PM WikiRestructuredText edited by
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- 6:46 PM WikiRestructuredTextLinks edited by
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- 6:46 PM InterMapTxt created by
Oct 20, 2006:
- 6:23 PM Ticket #405 (Highlight function in plot tool) created by
- Add a new tab in the plot tool similar to the Filter tab. The function …
- 4:48 PM Changeset [2755] by
- References #335. Backup for the weekend.Plugins not quite ready yet.
- 4:48 PM Ticket #335 (Plugins for importing/exporting plugin configurations) updated by
- (In [2755]) References #335. Backup for the weekend.Plugins not quite …
- 2:57 PM Ticket #401 (Filter plugin - failed to correctly apply filter on M values) updated by
-
Component, Status, Owner changed
This seems certainly to be true. The buggy code is located in the … - 2:12 PM Changeset [2754] by
- Fixes #359: Sorting on mulitple columns in web tables
- 2:12 PM Ticket #359 (Sorting on mulitple columns in web tables) closed by
- fixed: (In [2754]) Fixes #359: Sorting on mulitple columns in web tables
- 2:05 PM Ticket #359 (Sorting on mulitple columns in web tables) updated by
-
Status, Milestone changed
- 1:04 PM Ticket #404 (Replace deprecated Values class with the new one in all JSP pages) closed by
- fixed: (In [2753]) Fixes #404: Replace deprecated Values class with the new …
- 1:04 PM Changeset [2753] by
- Fixes #404: Replace deprecated Values class with the new one in all …
- 12:25 PM Ticket #404 (Replace deprecated Values class with the new one in all JSP pages) created by
- Some time ago we moved the net.sf.basedb.clients.web.util.Values class …
- 12:23 PM Changeset [2752] by
- Fixes #400: Negative values are not correctly displayed.
- 12:23 PM Ticket #400 (Negative values are not correctly displayed.) closed by
- fixed: (In [2752]) Fixes #400: Negative values are not correctly displayed.
- 12:21 PM Ticket #400 (Negative values are not correctly displayed.) updated by
-
Summary changed
- 11:57 AM Ticket #400 (Negative values are not correctly displayed.) updated by
-
Status, Owner, Component, Milestone changed
This was fixed in 2.1 but looking at the code I think that the minus … - 11:45 AM Ticket #403 (Make Bioassays and Bioassay sets annotatable) created by
- Bioassays are currently not annotatable. It would, however, be …
- 11:42 AM Ticket #313 (Error handling in import plugins) closed by
- fixed: (In [2751]) Fixes #313: Error handling in import plugins
- 11:42 AM Changeset [2751] by
- Fixes #313: Error handling in import plugins
- 11:25 AM Ticket #402 (Add shortcut button for 'current item', 'current experiment' and ...) created by
- If a session keeps track of the most recently viewed Experiment, …
- 11:14 AM Changeset [2750] by
- Filter no longer create multiple child bioassays.
- 11:09 AM Ticket #401 (Filter plugin - failed to correctly apply filter on M values) created by
- When applying a filter to create a filtered bioassay set using the …
- 11:01 AM Ticket #400 (Negative values are not correctly displayed.) created by
- Negative M values are not displayed correctly in EExplorer. For …
- 9:22 AM Changeset [2749] by
- Fixed bug that caused Lowess and Median normalizations to throw …
- 8:34 AM Changeset [2748] by
- Added disabled version of "copy" icon.
Oct 19, 2006:
- 2:40 PM Ticket #399 (Losing Bioassay table in EExplorer when browsing positions) created by
- When viewing a BioassaySet in EExplorer the table over Bioassays …
- 2:16 PM Changeset [2747] by
- Merged log:branches/2.0.1#2684:2740 to trunk.
- 11:53 AM Changeset [2746] by
- Show only 30 rows as default.
Oct 18, 2006:
- 11:19 AM Ticket #313 (Error handling in import plugins) updated by
-
Owner, Status, Summary, Priority, Milestone changed
- 11:16 AM Ticket #354 (Copy transformation) closed by
- fixed: (In [2745]) Fixes #354: Copy transformation
- 11:16 AM Changeset [2745] by
- Fixes #354: Copy transformation
- 9:50 AM Ticket #398 (Version information in the "About" button) created by
- The version information always show 2.0, should it be bumped with …
- 9:47 AM Milestone BASE 2.0.2 completed
- Problems and bugs found in 2.0.1 are attached to this milestone. …
- 9:47 AM Changeset [2744] by
- Added milestone update information when releasing a new version.
- 9:39 AM Changeset [2743] by
- Reordered the recipe for releasing new revision.
- 9:34 AM Changeset [2742] by
- New bug fix branch for 2.0.2
- 9:33 AM DownloadPage edited by
- 2.0.2 released (diff)
- 9:25 AM Changeset [2741] by
- Tagging version 2.0.2
- 8:57 AM Changeset [2740] by
- Bumped version number.
Oct 17, 2006:
- 3:48 PM Ticket #354 (Copy transformation) updated by
-
Status changed
- 3:48 PM Ticket #354 (Copy transformation) updated by
-
Owner, Status changed
- 3:43 PM Changeset [2739] by
- No longer needed since since FormulaFilter is now an InteractivePlugin.
- 3:42 PM Ticket #295 (Filter on selected bioassays) closed by
- fixed: (In [2738]) Fixes #295: Filter on selected bioassays
- 3:42 PM Changeset [2738] by
- Fixes #295: Filter on selected bioassays
- 9:46 AM Ticket #397 (Use the FindBugs program to check the BASE 2 code) created by
- I recently tested the FindBugs (http://findbugs.sourceforge.net/) …
- 8:53 AM Ticket #396 (Generic export function doesn't work when column names has a comma in them) closed by
- fixed: (In [2737]) Fixes #396: Generic export function doesn't work when …
- 8:53 AM Changeset [2737] by
- Fixes #396: Generic export function doesn't work when column names has …
- 8:42 AM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) closed by
- fixed: (In [2736]) Fixes #382: A very minimal extended-properties.xml creates …
- 8:42 AM Changeset [2736] by
- Fixes #382: A very minimal extended-properties.xml creates null …
- 8:07 AM Ticket #396 (Generic export function doesn't work when column names has a comma in them) updated by
-
Status changed
- 8:07 AM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) reopened by
- There are also JSP pages which are affected by this.
- 7:51 AM Ticket #396 (Generic export function doesn't work when column names has a comma in them) created by
- […]
Oct 16, 2006:
- 3:51 PM Ticket #295 (Filter on selected bioassays) updated by
-
Status changed
The filter plugin should also be changed to an InteractivePlugin using … - 3:39 PM Changeset [2735] by
- Double-click to move columns
- 2:39 PM Ticket #311 (Allow parsing of numbers with different locale settings) updated by
- The introduction of Formatter objects by the fix to ticket #316 should …
- 2:39 PM Ticket #317 (Display and enter dates in different formats) updated by
- The introduction of Formatter objects by the fix to ticket #316 should …
- 2:38 PM Ticket #380 (Bug in Lowess) updated by
- (In [2734]) fixes #380
- 2:38 PM Changeset [2734] by
- fixes #380
- 2:32 PM Ticket #316 (Add support for color coding in data tables) closed by
- fixed: (In [2733]) Fixes #316: Add support for color coding in data tables
- 2:32 PM Changeset [2733] by
- Fixes #316: Add support for color coding in data tables
- 2:30 PM Ticket #391 (LowessNormalization has an if statement that does nothing.) closed by
- fixed: (In [2732]) fixes #391
- 2:30 PM Changeset [2732] by
- fixes #391
- 2:26 PM Ticket #380 (Bug in Lowess) closed by
- fixed: (In [2731]) fixes #380
- 2:26 PM Changeset [2731] by
- fixes #380
- 2:20 PM Ticket #380 (Bug in Lowess) updated by
-
Status changed
Oct 13, 2006:
- 7:23 PM Ticket #395 (typo in www/admin/plugindefinitions/edit_plugin.jsp) updated by
-
Milestone changed
- 7:18 PM Changeset [2730] by
- Fixes #395. Removed stray ' character.
- 7:18 PM Ticket #395 (typo in www/admin/plugindefinitions/edit_plugin.jsp) closed by
- fixed: (In [2730]) Fixes #395. Removed stray ' character.
- 6:52 PM Ticket #395 (typo in www/admin/plugindefinitions/edit_plugin.jsp) created by
- On line 143 in www/admin/plugindefinitions/edit_plugin.jsp …
- 4:08 PM Ticket #393 (Typo in Base1PluginExecuter) updated by
-
Milestone changed
- 4:07 PM Ticket #393 (Typo in Base1PluginExecuter) updated by
-
Milestone changed
- 11:58 AM Ticket #394 (Make it possible to export and properly query values in components) created by
- The ColoringData component is the first component class we use in …
Oct 12, 2006:
- 11:43 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) closed by
- fixed: Fixed. The root cause of the problem was outside base project files.
- 11:12 PM Ticket #384 (Script files (.sh) do not have the proper file permission in linux) closed by
- fixed: Fixed in changeset:2729
- 11:06 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) reopened by
- 8:47 PM Ticket #387 (Can't remove reporters from a Reporter List) closed by
- invalid: This report was posted earlier today in the Hibernate bug tracking …
- 4:02 PM Changeset [2729] by
- Fixes #385. ant cannot keep file properties due to non-Java support …
- 4:02 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) closed by
- fixed: (In [2729]) Fixes #385. ant cannot keep file properties due to …
- 3:13 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) updated by
-
Component changed
- 3:07 PM Changeset [2728] by
- fixes 392
- 2:40 PM Ticket #392 (Typo in Base1PluginExecuter.java) closed by
- fixed
- 2:25 PM Ticket #387 (Can't remove reporters from a Reporter List) updated by
- Turns out it is a bug in hibernate. I've been flip flopping between …
- 1:28 PM Ticket #393 (Typo in Base1PluginExecuter) closed by
- fixed: (In [2727]) Fixed typo in getBase1Columns fixes #393
- 1:28 PM Changeset [2727] by
- Fixed typo in getBase1Columns fixes #393
- 1:27 PM Ticket #393 (Typo in Base1PluginExecuter) created by
- Typo in …
- 1:08 PM Ticket #392 (Typo in Base1PluginExecuter.java) created by
- Hi, I found a typo in …
- 11:03 AM Ticket #316 (Add support for color coding in data tables) updated by
-
Status changed
- 11:02 AM Ticket #380 (Bug in Lowess) updated by
- I just noticed that the MedianRatioNormalization plugin has a similar …
- 11:00 AM Ticket #390 (Increase the performance of IntensityCalculatorPlugin) closed by
- fixed: Fixed in changeset [2726] Unfortunately MySQL doesn't seem to benefit …
- 10:58 AM Changeset [2726] by
- 10:11 AM Ticket #387 (Can't remove reporters from a Reporter List) updated by
-
Priority changed
I am not able to reproduce this. I can remove reporters without … - 8:15 AM Changeset [2725] by
- Fixed NullPointerException when stopping BASE.
Oct 11, 2006:
- 2:30 PM Ticket #390 (Increase the performance of IntensityCalculatorPlugin) updated by
-
Status changed
- 2:29 PM Changeset [2724] by
- Fixes #388: When restarting a failed job it should be possible to …
- 2:29 PM Ticket #388 (When restarting a failed job it should be possible to select a new ...) closed by
- fixed: (In [2724]) Fixes #388: When restarting a failed job it should be …
- 2:02 PM Ticket #388 (When restarting a failed job it should be possible to select a new ...) updated by
-
Status changed
- 2:01 PM Changeset [2723] by
- Fixes #389: Check the java and jsp files for System.out.println debug …
- 2:01 PM Ticket #389 (Check the java and jsp files for System.out.println debug output) closed by
- fixed: (In [2723]) Fixes #389: Check the java and jsp files for …
- 1:59 PM Ticket #391 (LowessNormalization has an if statement that does nothing.) created by
- Should something be happening here or can it be removed? […]
- 1:53 PM Ticket #386 (The AbstractEntityQuery.count() method doesn't enable filters) closed by
- fixed: In changeset [2722]
- 1:37 PM Ticket #220 (Plugin permissions) closed by
- fixed: (In [2722]) Fixes #220: Plugin permissions
- 1:37 PM Changeset [2722] by
- Fixes #220: Plugin permissions
- 12:30 PM Ticket #390 (Increase the performance of IntensityCalculatorPlugin) created by
- The current implementation always uses the IntensityCalculator …
- 9:26 AM Ticket #389 (Check the java and jsp files for System.out.println debug output) created by
- I found two places just by accident. It is possible that there are more.
- 8:46 AM Ticket #388 (When restarting a failed job it should be possible to select a new ...) created by
- Ticket #318 changed how a job gets the plugin configuration parameters …
Oct 10, 2006:
- 6:41 PM Changeset [2721] by
- Removed debug output
- 3:40 PM Ticket #387 (Can't remove reporters from a Reporter List) updated by
- Forgot to paste the Exception line: java.lang.ClassCastException on …
- 3:39 PM Ticket #387 (Can't remove reporters from a Reporter List) created by
- Steps performed: Selected a bunch of reporters via their ID (approx. …
- 11:42 AM Ticket #386 (The AbstractEntityQuery.count() method doesn't enable filters) created by
- As a result, it counts all items, regardless of the query settings and …
Oct 9, 2006:
- 3:50 PM Ticket #380 (Bug in Lowess) updated by
- I think it is possible that there are blocks with a block number of 0. …
- 3:37 PM Changeset [2720] by
- Fixes #382: A very minimal extended-properties.xml creates null …
- 3:37 PM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) closed by
- fixed: (In [2720]) Fixes #382: A very minimal extended-properties.xml creates …
- 2:58 PM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) updated by
-
Status changed
- 9:52 AM Changeset [2719] by
- References #335. The first part of a plugin configuration importer. No …
- 9:52 AM Ticket #335 (Plugins for importing/exporting plugin configurations) updated by
- (In [2719]) References #335. The first part of a plugin configuration …
- 8:13 AM Ticket #383 (Should more docs be shipped with the binary package?) updated by
-
Component, Owner, Milestone changed
- 8:13 AM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) updated by
-
Milestone, Owner, Priority, Component changed
Oct 6, 2006:
- 9:52 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) updated by
-
Status changed
- 9:52 PM Ticket #385 (Make sure that the distribution packaging script creates directories ...) created by
- In the case of base-2.0.1.tar.gz the directory created in extracting …
- 9:49 PM Ticket #384 (Script files (.sh) do not have the proper file permission in linux) updated by
-
Status changed
- 9:49 PM Ticket #384 (Script files (.sh) do not have the proper file permission in linux) created by
- This applies for the binary package. Check if the source package is ok.
- 9:44 PM Changeset [2718] by
- Finalized information about publishing a new release.
- 9:42 PM Changeset [2717] by
- Removed obsolete branch. Superseded by source:/branches/2.0.1
- 9:24 PM Ticket #383 (Should more docs be shipped with the binary package?) updated by
- And also with the source package if it is missing there aswell.
- 9:23 PM Ticket #383 (Should more docs be shipped with the binary package?) created by
- As it is now only installation.html is shipped. Should we include …
- 9:02 PM Ticket #382 (A very minimal extended-properties.xml creates null pointer exceptions.) created by
- The bare minimum …
- 8:32 PM Ticket #381 (User with administrator rights cannot share items (files) to group Everyone) created by
- The Everyone group does not show up as an option when sharing files. …
- 2:26 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) closed by
- worksforme
- 2:09 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) updated by
- I have since tried this out on a different install of BASE2 which uses …
- 1:09 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) updated by
- Yes, I get the same message: Done: 10263 spots inserted I can also …
- 10:46 AM Ticket #220 (Plugin permissions) reopened by
- Reopened because the current solution with permission per thread …
- 8:08 AM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) updated by
- This is more or less exactly the same steps I used to test it. But in …
- 8:05 AM Ticket #380 (Bug in Lowess) created by
- There is a bug in the Lowess plugin. Looping through the blocks …
- 1:44 AM Changeset [2716] by
- Fixed typos.
- 1:41 AM Changeset [2715] by
- First steps toward user documentation.
- 1:23 AM Changeset [2714] by
- Added section heading for howto change extended properties.
- 1:20 AM Changeset [2713] by
- Added documentation about extended-properties.xml.
- 12:29 AM Changeset [2712] by
- Fixed spelling.
- 12:27 AM Changeset [2711] by
- Fixed links and added mysql/innodb tuning info.
Oct 5, 2006:
- 2:56 PM Changeset [2710] by
- Merge commands has been added
- 2:36 PM Ticket #318 (Plugin configuration values are not stored for a job) closed by
- fixed: (In [2709]) Fixes #318: Plugin configuration values are not stored for …
- 2:36 PM Changeset [2709] by
- Fixes #318: Plugin configuration values are not stored for a job And …
- 1:27 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) updated by
- Here is how to reproduce the error: 1. create new raw bioassay item …
- 12:58 PM Ticket #318 (Plugin configuration values are not stored for a job) updated by
-
Status changed
- 8:38 AM Changeset [2708] by
- Fixed bug with linking if item.type is empty
Oct 4, 2006:
- 11:12 PM Changeset [2707] by
- Spell checked.
- 10:25 PM Changeset [2706] by
- Creating sample extended-properties.xml files.
- 10:09 PM Ticket #379 (BASE2: Fails to display Raw data from a RawBioassay imported from ...) closed by
- duplicate: This is a duplicate of ticket #99. A workaround is described in the …
- 5:43 PM Ticket #379 (BASE2: Fails to display Raw data from a RawBioassay imported from ...) created by
- I've done a migration from 1.2.17 to base 2.0. No glaring errors were …
- 4:46 PM Changeset [2705] by
- Removed references to RC2.
- 4:09 PM Changeset [2704] by
- Fixes #343: Plot tool should be able to use other annotations than bioassay
- 4:09 PM Ticket #343 (Plot tool should be able to use other annotations than bioassay) closed by
- fixed: (In [2704]) Fixes #343: Plot tool should be able to use other …
- 2:01 PM Changeset [2703] by
- Fixed some threading problems with Keyring and plugin permissions.
- 1:59 PM Changeset [2702] by
- Fixed unclosed DbControl.
- 1:59 PM Changeset [2701] by
- Deny access if role permission has DENIED flag set.
- 1:58 PM Changeset [2700] by
- PluginRequest.doInvoke() and SessionControl.setActivePlugin() should …
- 1:55 PM Changeset [2699] by
- Fixed unclosed DbControl in case of an exception while updating the …
- 9:59 AM Changeset [2698] by
- Fixed NoSuchElementException bug when iterating over more than one …
- 9:14 AM Ticket #378 (Creation of configurations for plug-ins that do not need configs are ...) created by
- Many plug-ins do not need configurations and in consequence these …
- 8:44 AM Ticket #343 (Plot tool should be able to use other annotations than bioassay) updated by
-
Status changed
- 8:43 AM Ticket #368 (Migration should migrate plugin settings for BASE 1 plugins) updated by
- (In [2697]) References #368: Migration should migrate plugin settings …
- 8:43 AM Changeset [2697] by
- References #368: Migration should migrate plugin settings for BASE 1 …
Oct 3, 2006:
- 5:00 PM Changeset [2696] by
- References #335 Export plugin for plugin configurations. Saves the …
- 5:00 PM Ticket #335 (Plugins for importing/exporting plugin configurations) updated by
- (In [2696]) References #335 Export plugin for plugin configurations. …
- 4:03 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) updated by
- I am not able to reproduce this. Please provide more information about …
- 3:47 PM Changeset [2695] by
- Installation now installs Base1PluginExecuter plugin.
- 3:44 PM Tickets #201,370,371 batch updated by
- fixed: (In [2694]) Fixes #201, #370 and #371 * Experiment directory * …
- 3:44 PM Changeset [2694] by
- Fixes #201, #370 and #371 * Experiment directory * Hyperlink to …
- 3:41 PM Ticket #377 (hasData() flag not set on creation of new RawBioAssay, prevents ...) created by
- When a new RawBioAssay has been created and data have been imported …
- 1:56 PM Ticket #371 (Add a field Publication Title to the Publication Page in Experiment Section) updated by
-
Owner, Status, Milestone changed
- 1:55 PM Ticket #370 (Hyperlink to Pubmed if Pubmed id submitted from Publication Page in ...) updated by
-
Owner, Status changed
- 1:55 PM Ticket #201 (Experiment directory) updated by
-
Status changed
- 1:44 PM Changeset [2693] by
- Fixes #368: Migration should migrate plugin settings for BASE 1 plugins
- 1:44 PM Ticket #368 (Migration should migrate plugin settings for BASE 1 plugins) closed by
- fixed: (In [2693]) Fixes #368: Migration should migrate plugin settings for …
- 1:30 PM Changeset [2692] by
- Fixes #220 Plugin permissions.
- 1:30 PM Ticket #220 (Plugin permissions) closed by
- fixed: (In [2692]) Fixes #220 Plugin permissions.
- 1:21 PM Ticket #220 (Plugin permissions) reopened by
- The plugin should ignore the owner- and project/shared permissions for …
- 9:51 AM Ticket #368 (Migration should migrate plugin settings for BASE 1 plugins) updated by
-
Status changed
- 9:51 AM Ticket #10 (Analysis: Hierarchical clustering) updated by
-
Priority changed
- 9:35 AM Ticket #366 (Batch upload using zip-files) closed by
- fixed: (In [2691]) Fixes #366: Batch upload using zip-files
- 9:35 AM Changeset [2691] by
- Fixes #366: Batch upload using zip-files
- 8:28 AM Ticket #376 (Better system for checking which plugins that can be executed in a ...) created by
- The current implementation leads to lots of situation where you think …
Oct 2, 2006:
- 4:44 PM Changeset [2690] by
- Merged log:branches/2.0#2618:2688 from branch 2.0 to trunk.
- 4:04 PM Ticket #366 (Batch upload using zip-files) updated by
- (In [2689]) References #366: Batch upload using zip-files Added …
- 4:04 PM Changeset [2689] by
- References #366: Batch upload using zip-files Added plugin for zip …
- 3:00 PM Changeset [2688] by
- Added AbsoluteProgressReporter and two simple implementations.
- 2:05 PM Changeset [2687] by
- extra values added to pluginexecuter
- 1:28 PM Ticket #198 (New PluginDefinition name) updated by
-
Milestone changed
- 1:28 PM Ticket #296 (The raw bioassays on the bioassayset view) updated by
-
Milestone changed
- 1:27 PM Ticket #299 (Experiment explorer) updated by
-
Milestone changed
- 1:24 PM Milestone BASE 2.0.1 completed
- Problems and bugs found in 2.0. These will be fixed ASAP. The next …
- 1:24 PM Ticket #10 (Analysis: Hierarchical clustering) updated by
-
Milestone changed
- 1:23 PM Ticket #332 (Fix bugs in migration program) closed by
- fixed: The known issues are fixed and we have made extensive manual testing …
- 12:43 PM Changeset [2686] by
- Added information on what to do when publishing a new release of BASE.
- 12:35 PM Changeset [2685] by
- New bug fix branch for 2.0.1.
- 12:29 PM DownloadPage edited by
- Added version information to the download table. (diff)
- 12:27 PM DownloadPage edited by
- Removed obsolete packages. (diff)
- 12:26 PM DownloadPage edited by
- Version 2.0.1 released. (diff)
- 11:44 AM Changeset [2684] by
- Tagging version 2.0.1
- 11:40 AM Changeset [2683] by
- Bumped version number. Added disclaimer text to migration.
- 10:50 AM Changeset [2682] by
- Spell checked.
Oct 1, 2006:
- 9:34 PM Ticket #375 (Shared items: the shareness of items should be listed in the ...) created by
- As it is now the properties view will tell the user that the item is …
Note:
See TracTimeline
for information about the timeline view.
