Timeline
Dec 11, 2006:
- 5:06 PM Ticket #456 (Mass edit) created by
- A function to apply the same changes on many items at once can be very …
- 4:59 PM Changeset [3017] by
- Added a 'refresh-page'- button to the menu bar.
- 12:39 PM Changeset [3016] by
- Removed 'bin' from ignore properties and added 'testdata'
- 12:35 PM Ticket #405 (Highlight function in plot tool) closed by
- fixed: (In [3015]) Fixes #405: Highlight function in plot tool
- 12:35 PM Changeset [3015] by
- Fixes #405: Highlight function in plot tool
- 8:10 AM Changeset [3014] by
- Fixed problem with aborting a file upload
Dec 8, 2006:
- 3:26 PM Ticket #98 ("Excluded" items are still included if a list is exported) closed by
- fixed: (In [3013]) Fixes #98 "Excluded" items are still included if a list is …
- 3:26 PM Changeset [3013] by
- Fixes #98 "Excluded" items are still included if a list is exported
- 2:32 PM Changeset [3012] by
- References #444.Added the check of existing path for this plugin too.
- 1:04 PM Ticket #444 (Plugins should check that they are allowed to create/overwrite files ...) closed by
- fixed: (In [3011]) Fixes #444 Plugins should check that they are allowed to …
- 1:04 PM Changeset [3011] by
- Fixes #444 Plugins should check that they are allowed to …
- 11:58 AM Changeset [3010] by
- References #454: File upload times out Use Ajax for updating the …
- 10:47 AM Changeset [3009] by
Dec 7, 2006:
- 3:34 PM Ticket #437 (build from source doesn't include misc/sql/*.sql) closed by
- fixed: Fixed by ticket #412: Fix build.xml to make it more developer-friendly
- 2:52 PM Changeset [3008] by
- References #454: File upload times out Changed the way progress …
- 2:50 PM Changeset [3007] by
- Fixed bug in DbControl?.rollback() method when disconnected from the …
- 10:47 AM Changeset [3006] by
- First go at a webservices framework.
- 9:25 AM Ticket #455 (Empty date field is not accepted at several places) closed by
- fixed: (In [3005]) Fixes #455 Empty date field is not accepted at several places.
- 9:25 AM Changeset [3005] by
- Fixes #455 Empty date field is not accepted at several places.
Dec 6, 2006:
- 4:34 PM Ticket #455 (Empty date field is not accepted at several places) created by
- Trying to save an item with no date specified(where date is not a …
- 4:06 PM Changeset [3004] by
- Fixes #374 Restoring a Bioassayset or Transformation restores all …
- 4:06 PM Ticket #374 (Restoring a Bioassayset or Transformation restores all child bioassay ...) closed by
- fixed: (In [3004]) Fixes #374 Restoring a Bioassayset or Transformation …
- 12:25 PM Changeset [3003] by
- References #454: File upload times out Possible fix but have to be …
Dec 5, 2006:
- 12:44 PM Changeset [3002] by
- 10:53 AM Changeset [3001] by
- Creating a new branch for web services development.
- 10:47 AM Changeset [3000] by
- Creating a new branch for tab2mage development.
Dec 4, 2006:
- 12:57 PM Ticket #453 (End date is not allowed to be empty) closed by
- fixed: (In [2999]) Fixes #453: End date is not allowed to be empty
- 12:56 PM Changeset [2999] by
- Fixes #453: End date is not allowed to be empty
- 11:35 AM Ticket #454 (File upload times out) created by
- The file upload may randomly get a timeout exception: […] * It …
- 10:28 AM Changeset [2998] by
- References #215: Incorrect use of DynamicSpotQuery?... Fixed problem …
- 10:11 AM Ticket #453 (End date is not allowed to be empty) created by
- BASE complains with a popup: Invalid data On page …
- 12:45 AM WikiStart edited by
- Changed demo server location (diff)
- 12:00 AM Ticket #452 (Add BASEfile to the list of supported formats for BioAssaySetExporter ...) created by
Dec 1, 2006:
- 6:06 PM Milestone BASE 2.1.1 completed
- Issues assigned to this milestone will be fixed ASAP.
- 6:05 PM Changeset [2997] by
- Removing obsolete branch.
- 6:04 PM DownloadPage edited by
- 2.1.1 released. (diff)
- 4:15 PM Changeset [2996] by
- Deleting outdated branch.
- 4:11 PM Changeset [2995] by
- Bumped version to 2.1.2pre
- 3:41 PM Changeset [2994] by
- Fixed bug when web.xml wansn't found in config/local
- 3:34 PM Ticket #215 (Incorrect use of DynamicSpotQuery in table view, plot function, filter ...) closed by
- fixed: (In [2993]) Fixes #215: Incorrect use of DynamicSpotQuery? in table …
- 3:34 PM Changeset [2993] by
- Fixes #215: Incorrect use of DynamicSpotQuery? in table view, plot …
- 3:00 PM Changeset [2992] by
- Merged log:branches/2.1#2846:2990 trunk.
- 12:34 PM Changeset [2991] by
- New bug fix branch for 2.1
- 12:33 PM Changeset [2990] by
- Tagging version 2.1.1
- 12:32 PM Changeset [2989] by
- Set version to 2.1.1
- 11:53 AM Changeset [2988] by
- Fixes #433
- 11:53 AM Ticket #433 (Base1PluginExecutor doesn't set MIME type on files) closed by
- fixed: (In [2988]) Fixes #433
- 11:34 AM Ticket #429 (Add BASEfile export to the bioassayset exporter.) closed by
- fixed: (In [2987]) Fixes #429 BioAssaySetExporter? can export a serial …
- 11:34 AM Changeset [2987] by
- Fixes #429 BioAssaySetExporter? can export a serial basefile not merged …
- 11:30 AM Changeset [2986] by
- Added jep function for spot position
- 11:27 AM Changeset [2985] by
- Implements to methods to sort the enumeration on keys or values
Nov 30, 2006:
- 12:50 PM Changeset [2984] by
- Use the default error handling when nothing else has been specified
- 12:13 PM Changeset [2983] by
- Fixed incorrect generation of build.xml in source distribution
- 10:51 AM Changeset [2982] by
- Fixed compilation error
- 10:50 AM Ticket #447 (Fix javadoc warnings) closed by
- fixed: (In [2981]) Fixes #447: Fix javadoc warnings
- 10:50 AM Changeset [2981] by
- Fixes #447: Fix javadoc warnings
- 9:58 AM Changeset [2980] by
- addded nullcheck
- 8:37 AM Changeset [2979] by
- Need to generate hibernate mappings for test programs
- 8:27 AM Changeset [2978] by
- Added session="false" to all jsp pages so we no longer generate …
Nov 29, 2006:
- 2:51 PM Ticket #383 (Should more docs be shipped with the binary package?) closed by
- fixed
- 2:50 PM Changeset [2977] by
- Fixes #138: Write documentation: 5c) Authentication plug-ins
- 2:50 PM Ticket #138 (Write documentation: 5c) Authentication plug-ins) closed by
- fixed: (In [2977]) Fixes #138: Write documentation: 5c) Authentication plug-ins
- 2:49 PM Changeset [2976] by
- Fixed some spelling errors and added links to Javadoc
- 12:28 PM Ticket #451 (Zipped download) created by
- Create a plugin that allows a user to select one or more …
- 12:14 PM Changeset [2975] by
- Updated configuration files with correct column mappings.
- 12:11 PM Changeset [2974] by
- Fixed issues with incorrect column mappings and swithced channels in …
- 10:24 AM Ticket #449 (Innherit BASE 1 sample annotations to BASE 2 RawBioAssays during migration) closed by
- fixed: (In [2973]) Fixes #449: Innherit BASE 1 sample annotations to BASE 2 …
- 10:24 AM Changeset [2973] by
- Fixes #449: Innherit BASE 1 sample annotations to BASE 2 RawBioAssays? …
- 8:59 AM Changeset [2972] by
- References #383 and #412. Include some files from the misc directory …
- 8:35 AM Ticket #440 (Update to latest versions of 3rd-party software) reopened by
- It turns out that there is a connection leak in the c3p0 connection …
- 8:28 AM Changeset [2971] by
- Added svn.ignore
- 8:24 AM Ticket #450 (Plugin for importing Imagene raw data) created by
- Imagene raw data comes in two files. One for the cy3 channel and one …
Nov 28, 2006:
- 3:27 PM Ticket #449 (Innherit BASE 1 sample annotations to BASE 2 RawBioAssays during migration) created by
- The migration program should innherit the sample annotation from the …
- 3:04 PM Changeset [2970] by
- Fixes #440: Update to latest versions of 3rd-party software Verified …
- 3:04 PM Ticket #440 (Update to latest versions of 3rd-party software) closed by
- fixed: (In [2970]) Fixes #440: Update to latest versions of 3rd-party …
- 1:40 PM Changeset [2969] by
- Fixes #448: Setting 'Used quantity' for pooled sources of sample, …
- 1:40 PM Ticket #448 (Setting 'Used quantity' for pooled sources of sample, extracts and ...) closed by
- fixed: (In [2969]) Fixes #448: Setting 'Used quantity' for pooled sources of …
- 12:49 PM Ticket #448 (Setting 'Used quantity' for pooled sources of sample, extracts and ...) created by
- No error message. The value entered is silently ignored. The problem …
- 12:41 PM Changeset [2968] by
- Removed unused file
- 12:40 PM Changeset [2967] by
- References #440: Update to latest versions of 3rd-party software …
- 11:00 AM Changeset [2966] by
- References #440: Update to latest versions of 3rd-party software …
- 8:45 AM Changeset [2965] by
- References #412: Fix build.xml to make it more developer-friendly …
- 8:42 AM Ticket #447 (Fix javadoc warnings) created by
Nov 27, 2006:
- 3:44 PM Ticket #430 (The MeV bioassay set export should also generate an annotation file ...) closed by
- fixed: (In [2964]) Fixes #430. Finalized export ... fixed experimental factor …
- 3:44 PM Changeset [2964] by
- Fixes #430. Finalized export ... fixed experimental factor output. …
- 3:43 PM Changeset [2963] by
- Added link to BASE web site
- 3:02 PM Changeset [2962] by
- References #412: Fix build.xml to make it more developer-friendly …
- 2:59 PM Ticket #446 (File browser should have a possiblity to show creation/modifcation time) created by
- This would be very useful for sorting and checking of file age.
- 2:32 PM Changeset [2961] by
- References #429
- 1:40 PM Changeset [2960] by
- References #412: Fix build.xml to make it more developer-friendly Get …
- 12:36 PM Changeset [2959] by
- References #412: Fix build.xml to make it more developer-friendly
- 12:20 PM Changeset [2958] by
- Fixed permission problem when a plugin tries to access annotation values.
- 11:20 AM Ticket #445 (Plug-in writers should check that the plug-in has the proper ...) created by
- The plug-ins may have own permissions and these are used when the …
- 11:15 AM Ticket #444 (Plugins should check that they are allowed to create/overwrite files ...) created by
- before they are started (i.e., in the plug-in/job creation dialogue). …
- 8:11 AM Ticket #443 (raw bioassay data not linked to LIMS kills Feature.getWell in ...) closed by
- fixed: (In [2957]) Fixes #443: raw bioassay data not linked to LIMS kills …
- 8:11 AM Changeset [2957] by
- Fixes #443: raw bioassay data not linked to LIMS kills Feature.getWell …
Nov 26, 2006:
- 11:33 PM Changeset [2956] by
- Addresses #430. Most things fixed for export but experimental factors …
- 10:05 PM Changeset [2955] by
- Minor clarification for genepix reporter map imports.
- 9:38 PM Changeset [2954] by
- Improved Genepix information in the getting started doc.
Nov 25, 2006:
- 8:35 AM Changeset [2953] by
- Fixed null pointer exception for getting parameter values.
- 8:33 AM Changeset [2952] by
- Closing DbControl?.
Nov 24, 2006:
- 10:03 PM Changeset [2951] by
- Moved overwrite of existing file check to job configuration dialogue.
- 9:45 PM Changeset [2950] by
- Fixed typo.
- 4:53 PM Ticket #334 (Project default items) closed by
- fixed: (In [2949]) Fixes #334 Project default items
- 4:53 PM Changeset [2949] by
- Fixes #334 Project default items
- 3:41 PM Ticket #443 (raw bioassay data not linked to LIMS kills Feature.getWell in ...) created by
- I have migrated data sucessfully from BASE 1.2.x where we did not use …
Nov 23, 2006:
- 8:36 PM Changeset [2948] by
- Fixed typos.
- 7:47 PM Ticket #52 (Auto refresh job view when job not done) closed by
- worksforme
- 6:04 PM Changeset [2947] by
- References #334 Default settings are listed on project's view page
- 5:14 PM Ticket #52 (Auto refresh job view when job not done) reopened by
- The View->Jobs page does not refresh however. I'm also missing a …
- 2:41 PM Changeset [2946] by
- Fixes #442. Description for plugin parameters are now …
- 2:41 PM Ticket #442 (Plugin configuration exporter doesn't export parameter description) closed by
- fixed: (In [2946]) Fixes #442. Description for plugin parameters are now …
- 12:27 PM Changeset [2945] by
- Possible fix for BASE 1 disconnection issues
- 11:09 AM Ticket #441 (Plugin configuration importer import only half of the configuration) closed by
- fixed: (In [2944]) Fixes #441. The maxLength of an imported …
- 11:09 AM Changeset [2944] by
- Fixes #441. The maxLength of an imported StringParameterType? is now …
- 9:39 AM Changeset [2943] by
- References #317: Display and enter dates in different formats Added …
- 9:11 AM Ticket #442 (Plugin configuration exporter doesn't export parameter description) created by
- And the importer sets it to the empty string. The parameter …
- 8:32 AM Ticket #441 (Plugin configuration importer import only half of the configuration) created by
- Try importing the attached file containing plugin configurations. The …
Nov 22, 2006:
- 1:34 PM Ticket #317 (Display and enter dates in different formats) closed by
- fixed: (In [2942]) Fixes #317: Display and enter dates in different formats
- 1:34 PM Changeset [2942] by
- Fixes #317: Display and enter dates in different formats
- 12:11 PM Changeset [2941] by
- References #334. All default values can now be set when …
Nov 21, 2006:
- 5:59 PM Ticket #440 (Update to latest versions of 3rd-party software) created by
- Hibernate 3.2.1 contains a fix for the update bug affecting postgres. …
- 3:51 PM Changeset [2940] by
- References #438
- 3:46 PM Ticket #438 (BASE 1 lowess plugin description too long for BASE 2 migrate tool) closed by
- worksforme: I'll change it in the docs. We have used characterEncoding=utf8 …
Nov 20, 2006:
- 4:23 PM Changeset [2939] by
- References #334. Set default values for some BasicItems? in a project.
- 11:24 AM Changeset [2938] by
- Added performance test program
- 8:33 AM Changeset [2937] by
- Fixed a windows bug with path separators
Nov 17, 2006:
- 4:07 PM Changeset [2936] by
- References #333: Administrator documentation Added information about …
- 2:12 PM Changeset [2935] by
- Test program now sets USE permission to plugins since the default has …
- 1:35 PM Changeset [2934] by
- Updated UML diagrams of recent database changes (schema version 23 --> 26)
- 1:34 PM Ticket #172 (Add externalId property to annotation type) closed by
- fixed: (In [2933]) Fixes #172: Add externalId property to annotation type
- 1:34 PM Changeset [2933] by
- Fixes #172: Add externalId property to annotation type
- 12:29 PM Ticket #140 (Write documentation: 5e) Secondary file storage) closed by
- fixed: (In [2932]) Fixes #140: Write documentation: 5e) Secondary file …
- 12:29 PM Changeset [2932] by
- Fixes #140: Write documentation: 5e) Secondary file storage Also …
- 11:23 AM Changeset [2931] by
- References #439 Added job configuration for basefile Added method to …
- 11:18 AM Ticket #439 (Base file export) created by
- The basefile export should be removed from the Base1PluginExecuter and …
- 9:42 AM Changeset [2930] by
- Fixed compile error
- 9:36 AM Ticket #298 (Add administrator page for viewing disk usage statistics) closed by
- fixed: (In [2929]) Fixes #298: Add administrator page for viewing disk usage …
- 9:36 AM Changeset [2929] by
- Fixes #298: Add administrator page for viewing disk usage statistics
Nov 16, 2006:
- 5:38 PM Changeset [2928] by
- References #334. Updated the functions in core. Not completely …
- 5:20 PM Ticket #438 (BASE 1 lowess plugin description too long for BASE 2 migrate tool) created by
- I've patched the migrate tools to handle a customized Reporter table, …
- 3:04 PM Ticket #437 (build from source doesn't include misc/sql/*.sql) created by
- For the first time builder-from-source, I think it would be useful to …
- 1:28 PM Changeset [2927] by
- References #298: Add administrator page for viewing disk usage …
- 11:23 AM Changeset [2926] by
- Moved merge.txt info to developer docs.
Nov 15, 2006:
- 8:08 PM Changeset [2925] by
- Added svndigest:ignore property tom some items.
- 7:19 PM Changeset [2924] by
- Update to publishing a new release.
- 6:49 PM Changeset [2923] by
- Version info in Application,java is now pushed from build.xml using ant.
- 6:28 PM Changeset [2922] by
- Propagating build no for all compiles.
- 2:33 PM Ticket #347 (Give administrators access to other users trashcans) closed by
- wontfix: This is no longer needed since there are two workarounds: 1. The …
- 2:22 PM Ticket #348 (Take ownership of items) closed by
- fixed: (In [2921]) Fixes #348: Take ownership of items
- 2:22 PM Changeset [2921] by
- Fixes #348: Take ownership of items
- 2:09 PM Changeset [2920] by
- PlateFlatFileImporter? needs access to PlateGeometries?
- 1:28 PM Changeset [2919] by
- References #348: Take ownership of items Implemented on all pages in …
- 12:21 PM Changeset [2918] by
- References #348: Take ownership of items Implemented on all pages in …
- 11:28 AM Changeset [2917] by
- References #348: Take ownership of items Implemented on all …
- 11:07 AM Changeset [2916] by
- References #348: Take ownership of items Framework is done. Used …
- 8:38 AM Changeset [2915] by
- Download servlet now sets a MIME type by checking the registered file …
- 8:38 AM Changeset [2914] by
- Download servlet now sets a MIME type by checking the registered file …
- 8:37 AM Changeset [2913] by
- Internal subdirectory is now generated taking year, week, day in week …
- 8:00 AM Changeset [2912] by
- Fixed NullPointerException? when sc == null
- 7:58 AM Ticket #436 (Create extension system for the web application) created by
- Create an extension/plug-in system for the web application that makes …
- 1:07 AM Changeset [2911] by
- Fixes #418.
- 1:07 AM Ticket #418 (Propagate the build number to the source package.) closed by
- fixed: (In [2911]) Fixes #418.
Nov 14, 2006:
- 10:56 PM Changeset [2910] by
- References #418.
- 5:05 PM Changeset [2909] by
- References #418. Removed build number from generated tar files.
- 4:51 PM Changeset [2908] by
- References #418. Add creation of source distro. Propagating build …
- 4:47 PM Ticket #435 (A check for reporter information is needed when adding/using ...) created by
- Affymetrix data can be used up to the point when a plug-in …
- 3:49 PM Ticket #402 (Add shortcut button for 'current item', 'current experiment' and ...) closed by
- fixed: (In [2907]) Fixes #402: Add shortcut button for 'current item', …
- 3:49 PM Changeset [2907] by
- Fixes #402: Add shortcut button for 'current item', 'current …
- 3:39 PM Changeset [2906] by
- References #334 Methods to get and set default items for a project. …
- 1:55 PM Changeset [2905] by
- Added Metadata.getOwnableItems()
- 12:24 PM Changeset [2904] by
- Create sub-directories based on the date for uploaded files to avoid …
- 12:24 PM Changeset [2903] by
- Fixed problems with non-existing input fields when replacing a file
- 11:00 AM Changeset [2902] by
- Fixes #345: List all items owned by a user
- 11:00 AM Ticket #345 (List all items owned by a user) closed by
- fixed: (In [2902]) Fixes #345: List all items owned by a user
- 10:54 AM Changeset [2901] by
- Catch PermissionDeniedException? when deleting/restoring items
- 8:56 AM Changeset [2900] by
- Fixed checking of already existing login and external ID for users.
- 8:33 AM Ticket #434 (Base1PluginExecuter option enhancements) closed by
- wontfix: The Base1PluginExecuter already keeps the directory structure as …
Nov 13, 2006:
- 11:56 PM Ticket #434 (Base1PluginExecuter option enhancements) created by
- (using BASE 2.1 (2847) on Solaris 10 / Tomcat 5.5.17 / JDK 1.5.0_08) …
- 11:36 PM Ticket #433 (Base1PluginExecutor doesn't set MIME type on files) created by
- (using BASE 2.1 (2847) on Solaris 10 / Tomcat 5.5.17 / JDK 1.5.0_08) …
- 4:07 PM Ticket #241 (Files that have been used for parameters to a job can't be deleted properly) closed by
- fixed: (In [2899]) Fixes #241: Files that have been used for parameters to a …
- 4:06 PM Changeset [2899] by
- Fixes #241: Files that have been used for parameters to a job can't be …
- 3:31 PM Ticket #346 (If an item is used, get information about the items that are using it) closed by
- fixed: (In [2898]) Fixes #346: If an item is used, get information about the …
- 3:31 PM Changeset [2898] by
- Fixes #346: If an item is used, get information about the items that …
- 11:56 AM Changeset [2897] by
- Create new DbControl? for each array design
- 9:40 AM Ticket #399 (Losing Bioassay table in EExplorer when browsing positions) closed by
- fixed
- 8:38 AM Changeset [2896] by
- Bumped version number to 2.1.1
- 8:27 AM Ticket #432 (Migration fails if the input field with is invalid in Base 1) closed by
- fixed: (In [2895]) Fixes #432: Migration fails if the input field with is …
- 8:27 AM Changeset [2895] by
- Fixes #432: Migration fails if the input field with is invalid in Base 1
- 8:13 AM Ticket #432 (Migration fails if the input field with is invalid in Base 1) created by
- […] A better approach would be to only set the width if it …
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