Timeline
Feb 5, 2007:
- 11:02 PM Tickets #10,352 batch updated by
- (In [3102]) Addresses #10 and #352. MeV jsp uses Servlet API to …
- 11:02 PM Changeset [3102] by
- Addresses #10 and #352. MeV jsp uses Servlet API to retrieve server …
- 9:02 PM Ticket #365 (Use java web start to launch plug-ins) closed by
- fixed: Mulit experiment viewer, http://www.tm4.org, is started with web …
- 8:55 PM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) closed by
- fixed: Increasing the MaxPermSize solves the problem. Our server is still …
- 8:53 PM Ticket #471 (Filenames with () are not treated well by trac) closed by
- fixed: Fixed in changeset:3066
- 4:43 PM Tickets #10,352 batch updated by
- (In [3101]) Addresses #10 and #352. Fixed problem with non-appearing …
- 4:43 PM Changeset [3101] by
- Addresses #10 and #352. Fixed problem with non-appearing tool icons in MeV.
- 3:36 PM Ticket #485 (A user's group membership is not listed.) updated by
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Owner, Component, Priority changed
This only seems to appear with the group/users created with 'test roles' - 3:18 PM Ticket #485 (A user's group membership is not listed.) created by
- You have a group, lets say Group A, where some users have been added …
- 12:19 PM Changeset [3100] by
- Addresses #10 and #352. Now actually using the bioassayset used to …
- 12:19 PM Tickets #10,352 batch updated by
- (In [3100]) Addresses #10 and #352. Now actually using the bioassayset …
- 12:03 PM Changeset [3099] by
- Moved max heap size tag to correct tag.
- 11:52 AM Ticket #10 (Analysis: Hierarchical clustering) updated by
- (In [3098]) References #10: Hierarchical clustering Added servlet for …
- 11:52 AM Changeset [3098] by
- References #10: Hierarchical clustering Added servlet for downloading …
- 11:49 AM Changeset [3097] by
- Fixed permission check problem that caused a query to return items the …
- 11:37 AM Tickets #10,352,365 batch updated by
- (In [3096]) Addresses #10, #352, #365. First checkin for JWS use to …
- 11:37 AM Changeset [3096] by
- Addresses #10, #352, #365. First checkin for JWS use to launch MeV.
- 10:58 AM Changeset [3095] by
- Fixed so the list page of plate mappings not are corrupt when user …
- 9:31 AM Ticket #294 (Performance testing: Plugin-in execution time) updated by
-
Milestone changed
- 9:31 AM Ticket #337 (Tab2Mage export plugin) updated by
-
Milestone changed
- 9:30 AM Ticket #333 (Administrator documentation) updated by
-
Milestone changed
- 9:30 AM Ticket #146 (Add help text to the web gui) updated by
-
Milestone changed
- 8:09 AM Changeset [3094] by
- Fixes #483: Add a direct start icon for export of bioassaysets in …
- 8:09 AM Ticket #483 (Add a direct start icon for export of bioassaysets in analysis tree) closed by
- fixed: (In [3094]) Fixes #483: Add a direct start icon for export of …
- 7:52 AM Ticket #484 ('Run plugin' button has misleading label since it only runs analysis ...) updated by
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Priority, Type changed
Export plugins are shown when you click the "Export" button. Analysis … - 7:49 AM Ticket #483 (Add a direct start icon for export of bioassaysets in analysis tree) updated by
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Owner, Priority, Status, Milestone changed
- 7:43 AM Ticket #483 (Add a direct start icon for export of bioassaysets in analysis tree) updated by
-
Description, Type, Summary changed
Split this ticket into two. See #484 - 7:42 AM Ticket #484 ('Run plugin' button has misleading label since it only runs analysis ...) created by
- The export plug-in does not show up in the plug-in list for running …
Feb 2, 2007:
- 11:39 AM Ticket #483 (Add a direct start icon for export of bioassaysets in analysis tree) created by
- As it is now the user has to select a specific bioassayset to get a …
Feb 1, 2007:
- 4:41 PM Changeset [3093] by
- References #146. Added group.edit... helptexts and began at role.edit…
- 4:41 PM Ticket #146 (Add help text to the web gui) updated by
- (In [3093]) References #146. Added group.edit... helptexts and began …
Jan 31, 2007:
- 10:30 PM Ticket #482 (Check that reporters really exists before using them ....) closed by
- duplicate: Duplicate of #435
- 8:32 PM Ticket #482 (Check that reporters really exists before using them ....) created by
- With Affymetrix it is possible to create an array design and associate …
- 8:27 PM Ticket #481 (Reporter importer plug-in should report how many reporters were ...) created by
- As it is now number of new and updated reporters are reporter. For …
- 8:12 PM Changeset [3092] by
- Added another affymetrix reporter importer configuration.
- 7:55 PM Ticket #480 (Verify values in extended-properties.xml and raw-data-types.xml) created by
- Empty column names are, for example, passed through and later an error …
- 3:15 PM Ticket #146 (Add help text to the web gui) updated by
- (In [3091]) References #146 Added helptexts for editing user. Set …
- 3:15 PM Changeset [3091] by
- References #146 Added helptexts for editing user. Set svn:eol-style on …
Jan 30, 2007:
- 10:26 AM Ticket #440 (Update to latest versions of 3rd-party software) updated by
- (In [3090]) References #440: Update to latest versions of 3rd-party …
- 10:26 AM Changeset [3090] by
- References #440: Update to latest versions of 3rd-party software …
Jan 29, 2007:
- 4:13 PM Changeset [3089] by
- BASE now throws right exception when trying to save a new user with a …
- 2:52 PM Changeset [3088] by
- Marked the password field to be required when editing a new user.
- 2:45 PM Changeset [3087] by
- Make sure DbControl is closed
- 2:45 PM Changeset [3086] by
- Fixes #466: Remaining Quantity not display in extracts
- 2:45 PM Ticket #466 (Remaining Quantity not display in extracts) closed by
- fixed: (In [3086]) Fixes #466: Remaining Quantity not display in extracts
- 1:29 PM RobotsTxt created by
- Adding web indexing robot repellent.
- 1:28 PM DeveloperInformation edited by
- Adding web indexing robot repellent. (diff)
- 11:32 AM Ticket #464 (Permission denied when creting AnyToAny) updated by
-
Status changed
- 10:46 AM Ticket #479 (BioAssaySetExport should allow immediate download.) created by
- This relates to the fixed ticket:189. Read the last comment, …
- 10:42 AM Ticket #440 (Update to latest versions of 3rd-party software) closed by
- fixed: (In [3085]) Fixes #440: Update to latest versions of 3rd-party software
- 10:42 AM Changeset [3085] by
- Fixes #440: Update to latest versions of 3rd-party software
- 10:23 AM WikiStart edited by
- (diff)
Jan 26, 2007:
- 4:07 PM Changeset [3084] by
- Added a help text for column configuration
Jan 25, 2007:
- 8:57 AM Changeset [3083] by
- Correct a parameter in genepix-dyeswap configuration for the …
Jan 24, 2007:
- 9:10 AM Changeset [3082] by
- Fixes #478 Plate Importer requests more permissions
- 9:10 AM Ticket #478 (Plate Importer requests more permissions) closed by
- fixed: (In [3082]) Fixes #478 Plate Importer requests more permissions
- 8:49 AM Ticket #478 (Plate Importer requests more permissions) updated by
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Status changed
- 8:49 AM Ticket #478 (Plate Importer requests more permissions) created by
- The Plate importer plugin requests read permission on plates but has …
Jan 23, 2007:
- 10:15 AM Ticket #473 (Cannot import a plug-in configuration as administrator (not 'root' user)) closed by
- duplicate: Ok, then it is the same as #476. I am closing this as a duplicate.
- 9:52 AM Changeset [3081] by
- Remarks added for each configuration in the list.
- 12:50 AM Ticket #473 (Cannot import a plug-in configuration as administrator (not 'root' user)) updated by
- I realize that my original descriptions was not clear, and in some …
Jan 22, 2007:
- 4:40 PM Changeset [3080] by
- Gave the edit-toolbar a proper BASE2-look.
- 4:02 PM Changeset [3079] by
- References #466: Remaining Quantity not display in extracts Fixed …
- 4:02 PM Ticket #466 (Remaining Quantity not display in extracts) updated by
- (In [3079]) References #466: Remaining Quantity not display in …
- 3:49 PM Ticket #466 (Remaining Quantity not display in extracts) updated by
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Milestone, Status, Component, Owner changed
The problem is that the remaining quantity is given a null value if no … - 2:52 PM Ticket #474 (Creation of new plug-in definition throws an exception if jar is not ...) updated by
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Milestone changed
I have made another change that also gets rid of the stacktrace. The … - 2:51 PM Ticket #459 (Better error message if plugin jar can't be found) updated by
- (In [3078]) References #459: Better error message if plugin jar can't …
- 2:51 PM Changeset [3078] by
- References #459: Better error message if plugin jar can't be found …
- 2:15 PM Ticket #431 (Multiple tables from the Table taglib on the same HTML page interfere ...) closed by
- fixed: (In [3077]) Fixes #431: Multiple tables from the Table taglib on the …
- 2:15 PM Changeset [3077] by
- Fixes #431: Multiple tables from the Table taglib on the same HTML …
- 2:14 PM Ticket #431 (Multiple tables from the Table taglib on the same HTML page interfere ...) updated by
-
Milestone, Status changed
- 1:37 PM Ticket #340 (Experiment validation tool) closed by
- fixed
- 1:36 PM Ticket #262 (Overview of an experiment) closed by
- fixed
- 12:20 PM Changeset [3076] by
- Added better log messages to find out where unclosed DbControl:s are …
- 12:02 PM Ticket #475 (Error running RMAExpress plug-in to create new root bioassay.) closed by
- fixed: (In [3075]) Fixes #475: Error running RMAExpress plug-in to create new …
- 12:02 PM Changeset [3075] by
- Fixes #475: Error running RMAExpress plug-in to create new root bioassay.
- 11:21 AM Ticket #475 (Error running RMAExpress plug-in to create new root bioassay.) updated by
- This problem is not specific to Affymetrix. The same error will happen …
- 11:16 AM Ticket #476 ("Import" button is not shown even if the user has permission to use an ...) closed by
- fixed: (In [3074]) Fixes #476: "Import" button is not shown even if the user …
- 11:16 AM Changeset [3074] by
- Fixes #476: "Import" button is not shown even if the user has …
- 11:08 AM Ticket #476 ("Import" button is not shown even if the user has permission to use an ...) updated by
-
Status, Priority changed
There are two problems that together creates a strange behaviour: 1. … - 10:57 AM Changeset [3073] by
- Fixes #477: Creating a child item in the same transaction as the …
- 10:57 AM Ticket #477 (Creating a child item in the same transaction as the parent item gives ...) closed by
- fixed: (In [3073]) Fixes #477: Creating a child item in the same transaction …
- 10:00 AM Ticket #477 (Creating a child item in the same transaction as the parent item gives ...) updated by
-
Status changed
- 9:54 AM Ticket #477 (Creating a child item in the same transaction as the parent item gives ...) created by
- For example: […] Happens because the permission check in …
Jan 21, 2007:
- 10:23 PM Changeset [3072] by
- Fixed another path problem when running server on Windows
- 10:15 PM Ticket #476 ("Import" button is not shown even if the user has permission to use an ...) created by
- From a comment in ticket #473: Another problem related to …
- 10:12 PM Ticket #473 (Cannot import a plug-in configuration as administrator (not 'root' user)) updated by
-
Priority changed
The import works when I test it in the trunk version. Can you confirm … - 10:03 PM Ticket #475 (Error running RMAExpress plug-in to create new root bioassay.) updated by
- Since there is a need to change affy treatment. Is there a possibility …
- 8:32 PM Ticket #475 (Error running RMAExpress plug-in to create new root bioassay.) updated by
-
Status changed
I think this happens because a query to count the number of mappings … - 8:18 PM Ticket #474 (Creation of new plug-in definition throws an exception if jar is not ...) closed by
- duplicate: Duplicate and fixed by ticket #459.
- 6:04 PM Ticket #475 (Error running RMAExpress plug-in to create new root bioassay.) created by
- I get "Error: Table 'base2dynamic.d1rawparents' doesn't exist" when …
- 5:34 PM Ticket #474 (Creation of new plug-in definition throws an exception if jar is not ...) created by
- but this exception should be caught and a nicer output could returned …
- 2:40 PM Ticket #473 (Cannot import a plug-in configuration as administrator (not 'root' user)) updated by
- Another problem related to configuration imports I encountered was …
Jan 18, 2007:
- 11:27 PM Ticket #473 (Cannot import a plug-in configuration as administrator (not 'root' user)) created by
- Running BASE 2.1.2 won't allow other administators than the default …
- 11:23 PM Ticket #335 (Plugins for importing/exporting plugin configurations) updated by
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Milestone changed
- 11:17 PM Ticket #335 (Plugins for importing/exporting plugin configurations) updated by
-
Milestone changed
- 9:34 PM Changeset [3071] by
- Removed obsolete branch.
- 8:07 PM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) updated by
- The third options is a bit risky if the libraries you move to a shared …
- 3:13 PM Changeset [3070] by
- Added core plugins link to admin docs list.
- 3:04 PM Changeset [3069] by
- Added remark column and increased page width.
- 1:20 PM Changeset [3068] by
- Merged log:branches/2.1.2#2991:3059 to trunk
- 12:22 PM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) updated by
- I am now running tomcat with CATALINA_OPTS="-server -Xmx500m …
- 12:08 PM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) updated by
-
Description changed
I am currently looking into these items (found searching the web) for … - 11:59 AM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) updated by
-
Status changed
- 11:59 AM Ticket #472 (java.lang.OutOfMemoryError: PermGen space) created by
- I get java.lang.OutOfMemoryError: PermGen space error when running …
- 11:31 AM Changeset [3067] by
- Remove CR characters from files and fixing svn:eol-style property.
- 11:25 AM Changeset [3066] by
- Removed parantheses in filenames. Trac cannot handle these in the …
- 11:23 AM Changeset [3065] by
- Added copyright statement.
- 11:01 AM Changeset [3064] by
- Added Affymetrix reporter (probeset) importer configuration.
Jan 15, 2007:
- 4:12 PM Changeset [3063] by
- Now get info about CEL and CDF file for affymetrix experiments. …
- 2:39 PM Tickets #262,340 batch updated by
- (In [3062]) References #262 and #340: Added possibility to save preset …
- 2:39 PM Changeset [3062] by
- References #262 and #340: Added possibility to save preset for …
- 10:48 AM Ticket #465 ('Encrypt password' checkbox should not be visible when external ...) closed by
- fixed: (In [3061]) Fixes #465: 'Encrypt password' checkbox should not be …
- 10:48 AM Changeset [3061] by
- Fixes #465: 'Encrypt password' checkbox should not be visible when …
- 10:09 AM Ticket #471 (Filenames with () are not treated well by trac) updated by
-
Status changed
- 10:09 AM Ticket #471 (Filenames with () are not treated well by trac) created by
- There are som doc related files linked from …
- 9:57 AM Ticket #466 (Remaining Quantity not display in extracts) updated by
-
Milestone, Priority changed
Jan 14, 2007:
- 9:35 PM WikiStart edited by
- Added link to core plug-ins list. (diff)
- 9:00 PM DownloadPage edited by
- 2.1.2 released (diff)
- 8:41 PM Changeset [3060] by
- Tagging version 2.1.2
- 8:35 PM Changeset [3059] by
- Bumped version number.
- 8:32 PM Milestone BASE 2.1.2 completed
- Issues assigned to this milestone will be fixed ASAP.
- 8:32 PM Ticket #454 (File upload times out) closed by
- fixed: The fix is now working on my slow connection test machines.
- 7:49 PM Ticket #451 (Zipped download) updated by
- I'd like to see support for the formats that are supported by the zip …
- 7:47 PM Ticket #470 (Improve batch upload to support tar:ed files) created by
- The support should include tar files that has been gzipped or bzipped.
Jan 12, 2007:
- 3:23 PM Changeset [3058] by
- Added one more configuration file for download in the plugin list. …
Jan 11, 2007:
- 3:29 PM Ticket #466 (Remaining Quantity not display in extracts) updated by
- The sample quantity does not get updated when you delete the extract.
- 3:25 PM Ticket #466 (Remaining Quantity not display in extracts) updated by
- Ok, 1:Create a sample "Adipose" 2:Create an empty extract (don't fill …
- 3:00 PM Ticket #146 (Add help text to the web gui) updated by
- (In [3057]) References #146 Added a tag/menu to symbolize menu names …
- 3:00 PM Changeset [3057] by
- References #146 Added a tag/menu to symbolize menu names in helptexts. …
Jan 10, 2007:
- 8:37 PM Ticket #469 (Improve error handling of invalid values in import plugins) created by
- Relates to ticket:573 The following was sent to the BASE mailing list …
- 8:14 PM Ticket #468 (File upload fails) closed by
- invalid: Either the directory for uploaded file you have configured in your …
- 8:12 PM Ticket #467 (GPR import problem) closed by
- fixed: This has already been fixed and will be included in the BASE 2.2 release.
- 8:06 PM Ticket #466 (Remaining Quantity not display in extracts) updated by
-
Priority, Milestone changed
Your description is not very clear on how to reproduce the error. It … - 4:20 PM Ticket #468 (File upload fails) created by
- When I upload a file with user Root, I get: Base version 2.0 (build …
- 12:47 PM Ticket #467 (GPR import problem) updated by
- Ooops, I forgot to add another change to the Cy5/Cy3 plugin. Both the …
- 12:26 PM Ticket #467 (GPR import problem) created by
- Hello, I couldn't use neither the Cy5/cy3 gpr import plugin or the …
- 11:48 AM Ticket #466 (Remaining Quantity not display in extracts) created by
- Hello, I thought Bug #448 seems to fix this problem, however I still …
- 9:32 AM Changeset [3056] by
- Changed requirements on tomcat to 5.5.16 or later.
- 9:31 AM Ticket #452 (Add BASEfile to the list of supported formats for BioAssaySetExporter ...) closed by
- fixed: (In [3055]) Fixes #452
- 9:31 AM Changeset [3055] by
- Fixes #452
- 9:31 AM Ticket #465 ('Encrypt password' checkbox should not be visible when external ...) updated by
-
Status, Owner changed
- 9:23 AM Ticket #465 ('Encrypt password' checkbox should not be visible when external ...) created by
- We need the password in clearwhen using external authentication and …
Jan 9, 2007:
- 7:54 PM Ticket #463 (Incompatible conditional operand types String and int) closed by
- invalid
- 5:19 PM Ticket #463 (Incompatible conditional operand types String and int) updated by
- Right as you said!!! the problem was coming from tomcat. I have …
- 2:46 PM Changeset [3054] by
- Moved the core plugin list to administration documentation
- 12:51 PM Changeset [3053] by
- Removed the coreplugins.html from the doc/user/ catalog.
- 9:12 AM Ticket #459 (Better error message if plugin jar can't be found) closed by
- fixed: (In [3052]) Fixes #459 Better error message if plugin jar can't be found
- 9:12 AM Changeset [3052] by
- Fixes #459 Better error message if plugin jar can't be found
Jan 8, 2007:
- 1:50 PM Changeset [3051] by
- References #262 and #340: Some minor improvements and fixes
- 1:50 PM Tickets #262,340 batch updated by
- (In [3051]) References #262 and #340: Some minor improvements and fixes
- 1:44 PM Ticket #440 (Update to latest versions of 3rd-party software) updated by
- (In [3050]) References #440: Update to latest versions of 3rd-party …
- 1:44 PM Changeset [3050] by
- References #440: Update to latest versions of 3rd-party software …
- 11:52 AM Ticket #412 (Fix build.xml to make it more developer-friendly) closed by
- fixed
- 10:00 AM Changeset [3049] by
- References #464: Permission denied when creting AnyToAny I think this …
- 10:00 AM Ticket #464 (Permission denied when creting AnyToAny) updated by
- (In [3049]) References #464: Permission denied when creting AnyToAny …
- 9:55 AM Ticket #463 (Incompatible conditional operand types String and int) updated by
-
Priority changed
I think this is a bug in the compiler Tomcat uses. See the following …
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