Timeline
Mar 27, 2006:
- 3:57 PM Changeset [2116] by
- Plotting histogram is now working.
- 11:53 AM Changeset [2115] by
- Selecting a different directory now updates the path in the "Save as" …
- 11:27 AM Ticket #169 (Use formulas for creating extra values) created by
- The new Formula item is a very powerful way to calculate extra values …
- 11:26 AM Ticket #168 (Use formulas in table listings of bioassay data) created by
- The new Formula item could prove very useful if used in table …
- 11:22 AM Ticket #165 (Running updatedb.sh changes server settings.) closed by
- fixed: (In [2114]) Fixes #165: Running updatedb.sh changes server settings
- 11:22 AM Changeset [2114] by
- Fixes #165: Running updatedb.sh changes server settings
- 11:17 AM Changeset [2113] by
- Updated plot tool. It should now be possible to create scatter plots …
- 8:04 AM Ticket #161 (Add support for showing help texts in the GUI) updated by
-
Status changed
- 8:01 AM Ticket #167 (Create root bioassayset using other plugins than IntensityCalculator) created by
- The current implementation has the IntensityCalculator hardcoded in …
- 7:59 AM Ticket #166 (Make IntensityCalculator an InteractivePlugin) created by
- and change it to use formulas from the database instead of from the …
Mar 24, 2006:
- 5:26 PM Changeset [2112] by
- Class and interface components in MagicDraw files coreclasses.uml.xml …
- 3:58 PM Changeset [2111] by
- Updated plot function
- 3:31 PM Changeset [2110] by
- Forgot information about database upgrade.
- 3:23 PM Changeset [2109] by
- Improved docs, and added information on how to upgrade existing BASE 2.
- 2:29 PM Changeset [2108] by
- Added taglib file for base-help
- 2:09 PM WikiStart edited by
- (diff)
- 11:47 AM Ticket #165 (Running updatedb.sh changes server settings.) updated by
-
Description changed
- 11:45 AM Ticket #165 (Running updatedb.sh changes server settings.) created by
- Running the update database script reverts the information 'About', …
- 11:17 AM Changeset [2107] by
- Added interface for administration of formulas.
Mar 23, 2006:
- 4:08 PM Changeset [2106] by
- Formulas should use the getTitle() not getName() from formulas defined …
- 2:35 PM Ticket #155 (Export of annotations does not work) closed by
- fixed
- 2:34 PM Changeset [2105] by
- Fixes ticket #155: Export of annotations does not work
- 2:19 PM Ticket #164 (View all items in a project) created by
- Create a new page that lists all items shared to a project.
- 2:07 PM Changeset [2104] by
- Added Formula, test code and updated UML diagram.
- 8:01 AM Ticket #163 (The tree of bioassay sets in the analysis should include ...) created by
- A transformation may not create any child bioassayset and those …
Mar 22, 2006:
- 4:03 PM Ticket #141 (When creating a new user the default quota is not preselected) closed by
- fixed: (In [2103]) Fixes #141. When creating a new user the default quota is …
- 4:03 PM Changeset [2103] by
- Fixes #141. When creating a new user the default quota is not preselected
- 3:54 PM Ticket #146 (Add help text to the web gui) updated by
-
Description changed
- 3:53 PM Ticket #161 (Add support for showing help texts in the GUI) updated by
-
Description changed
- 3:53 PM Ticket #162 (Install help texts in flexisble way) created by
- Currently there is no other way to install help texts than to …
- 3:51 PM Ticket #161 (Add support for showing help texts in the GUI) created by
- The core has support for storing help texts related to client …
- 3:48 PM Ticket #146 (Add help text to the web gui) updated by
-
Owner changed
- 2:58 PM Ticket #157 (Display and link to associated items from list page) updated by
-
Milestone changed
- 2:57 PM Ticket #158 (resizable annotation tab for most items but mostly needed for ...) updated by
-
Milestone changed
- 2:33 PM Ticket #154 (Filter is cleared) closed by
- fixed: (In [2102]) Added new list page for bioassay data. Removed all old …
- 2:33 PM Changeset [2102] by
- Added new list page for bioassay data. Removed all old pages from …
- 11:49 AM Ticket #118 (Not allowed to change password) closed by
- fixed: (In [2101]) Fixes #118.Not allowed to change password
- 11:49 AM Changeset [2101] by
- Fixes #118.Not allowed to change password
- 9:29 AM Changeset [2100] by
- Fixes #159.The Admin/Procotol menu item is disabled even if the user …
- 9:29 AM Ticket #159 (The Admin/Procotol menu item is disabled even if the user has ...) closed by
- fixed: (In [2100]) Fixes #159.The Admin/Procotol menu item is disabled even …
- 8:35 AM Ticket #159 (The Admin/Procotol menu item is disabled even if the user has ...) updated by
-
Status changed
- 8:22 AM Ticket #160 (List pages should be able to list subset of items) created by
- For example, the page that lists users should be able to list users …
- 8:15 AM Ticket #159 (The Admin/Procotol menu item is disabled even if the user has ...) created by
- About the permission. The original power user role does not have the …
Mar 21, 2006:
- 11:21 PM Ticket #158 (resizable annotation tab for most items but mostly needed for ...) created by
- Using Long Names for AnnotationType declaration results in limited …
- 11:14 PM Ticket #157 (Display and link to associated items from list page) created by
- For Samples, Extracts, LabeledExtracts, Hybridization, Scan and Raw …
- 4:04 PM Changeset [2099] by
- Added list page for bioassays
- 4:03 PM Changeset [2098] by
- Fixes #119. Can't annotate sample in base 2 demo server
- 4:03 PM Ticket #119 (can't annotate sample in base 2 demo server) closed by
- fixed: (In [2098]) Fixes #119. Can't annotate sample in base 2 demo server
- 2:57 PM Changeset [2097] by
- New list and view page design for bioassay sets. Rearranged HTML plot …
- 9:02 AM Changeset [2096] by
- Added Tree utility class.
Mar 20, 2006:
- 10:50 AM Changeset [2095] by
- Help/temporary packages net.sf.basedb.core-part and …
- 10:46 AM Ticket #156 (Creating a new file with the same name as a previously deleted file ...) created by
- The summary says it all. I suggest that the deleted flag should be …
- 10:43 AM Ticket #155 (Export of annotations does not work) created by
- Exporting samples with annotations generates the below stack trace. …
- 9:53 AM Changeset [2094] by
- Merged trunk changes r2084:HEAD(2093) into branch
- 9:41 AM Changeset [2093] by
- MagicDraw file docexmples.uml.xml converted to Umbrello file …
- 9:23 AM Changeset [2092] by
- MagicDraw file dataclasses.uml.xml converted to Umbrello file …
Mar 18, 2006:
- 4:34 PM Ticket #128 (tomcat5.5 has to be reinstalled after upgrading BASE jars.) closed by
- worksforme: No, not anymore, something magic has taken place.
- 3:00 PM Changeset [2091] by
- Changed 'about' copyright statement.
Mar 17, 2006:
- 11:58 PM Changeset [2090] by
- New package download revision.
- 5:37 PM Changeset [2089] by
- Changed between to be low <= x AND x < high Database independent
- 3:06 PM Changeset [2088] by
- Packages net.sf.basedb.core, net.sf.basedb.core.authentication, …
- 11:30 AM Changeset [2087] by
- Added first version of HTML plot tool
- 11:23 AM Ticket #145 (Plugin parameters with no default value get the string "null" as their ...) updated by
- Instead of null it now writes the empty string. But now the action for …
- 11:20 AM Ticket #154 (Filter is cleared) created by
- The filter on the rawdata table is cleared everytime the page is updated.
- 9:50 AM Ticket #124 (Plot function for analysed data) updated by
-
Status changed
- 9:46 AM Changeset [2086] by
- Added Log2Function, ChannelFunction and JepExpressionFunction These …
Mar 16, 2006:
- 4:39 PM Changeset [2085] by
- MagicDraw file coreclasses.uml.xml converted to Umbrello file …
- 3:27 PM Changeset [2084] by
- Core refactoring, creating a distinction between core features and …
- 10:40 AM Changeset [2083] by
- Added Type.isNumerical() method
- 9:51 AM Changeset [2082] by
- Added max height and width for images and set antialias to false
- 8:05 AM Changeset [2081] by
- Added a more visible link to milestones.
Mar 15, 2006:
- 2:13 PM Changeset [2080] by
- changed exception handling in method doImport
- 2:12 PM Ticket #151 (Space in filenames) closed by
- fixed: Must copy the web.xml to WEB-INF
- 1:29 PM Ticket #153 (More progress from importer plug-ins) created by
- Add line/s in the progress info. Maybe change to features or spot or …
- 1:16 PM Ticket #152 (Error text on rawdata importer plugin) updated by
-
Description changed
- 1:16 PM Ticket #152 (Error text on rawdata importer plugin) updated by
-
Description changed
- 1:16 PM Ticket #152 (Error text on rawdata importer plugin) created by
- When trying to import data on a none empty rawdata the errormessage …
- 1:04 PM Ticket #1 (column names in flatfile parser) updated by
-
Owner changed
- 1:03 PM Ticket #1 (column names in flatfile parser) updated by
-
Status, Owner changed
- 1:03 PM Ticket #147 (Make normalization pinbased) updated by
-
Status changed
- 1:02 PM Ticket #151 (Space in filenames) updated by
- Maybe thats not the problem. I can't view any file. I get an error …
- 11:41 AM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Status changed
- 11:13 AM Ticket #151 (Space in filenames) created by
- If you upload a file with spaces the file can't be found. When using …
- 11:02 AM Ticket #130 (Is the java compiler fix still needed for tomcat5.5) closed by
- fixed: (In [2079]) Fixes #130. The tomcat fix is not needed anymore, updated …
- 11:02 AM Changeset [2079] by
- Fixes #130. The tomcat fix is not needed anymore, updated documentation.
- 10:53 AM Changeset [2078] by
- Name of item types in view_role now agree with the names of item types …
- 10:53 AM Ticket #123 (The textformat of item types in Edit role ->Permissions doesn't agree ...) closed by
- fixed: (In [2078]) Name of item types in view_role now agree with the names …
- 8:18 AM Changeset [2077] by
- Help, FAQ and Report a bug links were linked to the wrong page if no …
- 8:08 AM Ticket #23 (Apply button in popup windows?) updated by
-
Priority changed
- 8:08 AM Ticket #141 (When creating a new user the default quota is not preselected) updated by
-
Owner changed
- 8:07 AM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Owner, Status changed
Mar 14, 2006:
- 1:25 PM Changeset [2076] by
- Started to add some procedures to test permissions in BASE2
Mar 13, 2006:
- 4:15 PM Ticket #143 (Typo in raw data type name for Affymetrix) closed by
- fixed
- 4:15 PM Changeset [2075] by
- Resolved ticket:143
- 3:56 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Priority changed
- 3:55 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Priority changed
- 3:54 PM Ticket #150 (Affymetrix support) created by
- 3:53 PM Ticket #149 (Plugin bridge that allows BASE1 plug-ins to be run in BASE2) created by
- 3:52 PM Ticket #145 (Plugin parameters with no default value get the string "null" as their ...) updated by
-
Owner changed
- 3:51 PM Ticket #143 (Typo in raw data type name for Affymetrix) updated by
-
Status, Owner changed
- 3:49 PM Ticket #142 (Changing Preference to S or XS prevents from Seeing Annotations ...) updated by
-
Status, Owner changed
- 3:47 PM Ticket #139 (Write documentation: 5d) Analysis plug-ins) updated by
-
Version, Milestone changed
- 3:47 PM Ticket #137 (Write documentation 5b) Plug-ins for importing data) updated by
-
Milestone, Version changed
- 3:46 PM Ticket #135 (Write documentation: 3c) Internals of the core API - Plugin system) updated by
-
Milestone changed
- 3:46 PM Ticket #127 (Experiment explorer) updated by
-
Milestone, Version changed
- 3:45 PM Ticket #126 (Add interface for managing reporter lists) updated by
-
Milestone changed
- 3:44 PM Ticket #125 (Create filtered bioassay sets) updated by
-
Milestone, Version changed
Filtering in analysis. - 3:43 PM Ticket #124 (Plot function for analysed data) updated by
-
Priority, Milestone, Version changed
- 3:41 PM Ticket #148 (Should read permission in BASE 1 be migrated as read/use permission in ...) created by
- Items shared to groups should be migrated as read/use, otherwise it is …
- 3:39 PM Ticket #118 (Not allowed to change password) updated by
-
Owner changed
- 3:37 PM Ticket #118 (Not allowed to change password) updated by
-
Milestone changed
- 3:36 PM Ticket #108 (Logging the change history of an item) updated by
-
Milestone changed
- 3:35 PM Ticket #2 (ability to add image files as annotation for samples) closed by
- wontfix: Replaced with ticket:107
- 3:33 PM Ticket #103 (Display name of current item in 'Set access permissions' dialog) updated by
-
Owner, Milestone, Version changed
- 3:30 PM Ticket #97 (Trashcan functionality) updated by
-
Milestone, Version changed
- 3:29 PM Ticket #96 (Inherit annotations) updated by
-
Milestone, Version changed
- 3:27 PM Ticket #86 (New importer: Plate mapping) updated by
-
Milestone changed
- 3:22 PM Ticket #78 (pinbase median ratio normalization) closed by
- fixed: Replace with ticket:147
- 3:21 PM Ticket #147 (Make normalization pinbased) created by
- 3:18 PM Ticket #37 (New/Edit user - Handling of duplicate login) updated by
-
Summary changed
- 3:17 PM Ticket #146 (Add help text to the web gui) created by
- This ticket is now part of tickets #268, #269, #270, #271 and #272.
- 3:11 PM Ticket #19 (Show/hide option for various section on a "view item" page) closed by
- wontfix
- 3:10 PM Ticket #10 (Analysis: Hierarchical clustering) updated by
-
Milestone changed
- 3:10 PM Ticket #3 (Update doesn't create indexes) updated by
-
Milestone changed
- 2:12 PM Ticket #145 (Plugin parameters with no default value get the string "null" as their ...) created by
- If no default value is set for a plugin parameter, the input field for …
- 2:01 PM Ticket #144 (Overhaul of BASE web site) created by
- BASE 2 should replace BASE 1 as the main event at BASE web site.
- 1:55 PM Ticket #142 (Changing Preference to S or XS prevents from Seeing Annotations ...) updated by
-
Status changed
The calulatation of the heigth for the input form is missing a … - 1:22 PM Ticket #143 (Typo in raw data type name for Affymetrix) created by
- a very minor thing to change in the …
- 1:08 PM Ticket #142 (Changing Preference to S or XS prevents from Seeing Annotations ...) created by
- Bug seen on demo-server + my own installation: when changing display …
- 12:53 PM Ticket #141 (When creating a new user the default quota is not preselected) created by
- The quota that happens to be sorted first in the list is the one that …
- 12:48 PM Ticket #131 (Write documentation 4a) Schematic overview of BASE) updated by
-
Type changed
- 12:48 PM Ticket #133 (Write documentation: 3c) Internals of the core API - Data validation) updated by
-
Type changed
- 12:48 PM Ticket #140 (Write documentation: 5e) Secondary file storage) created by
- 12:47 PM Ticket #139 (Write documentation: 5d) Analysis plug-ins) created by
- 12:46 PM Ticket #138 (Write documentation: 5c) Authentication plug-ins) created by
- 12:46 PM Ticket #137 (Write documentation 5b) Plug-ins for importing data) created by
- 12:44 PM Ticket #136 (Write documentation: 3c) Internals of the core API - Job queue management) created by
- 12:44 PM Ticket #135 (Write documentation: 3c) Internals of the core API - Plugin system) created by
- 12:43 PM Ticket #134 (Write documentation: 3c) Internals of the core API - Checking quota) created by
- 12:43 PM Ticket #133 (Write documentation: 3c) Internals of the core API - Data validation) created by
- 12:42 PM Ticket #132 (Write documentation: 3c) Internals of the core API - Transaction handling) created by
- 12:15 PM Ticket #131 (Write documentation 4a) Schematic overview of BASE) updated by
-
Summary changed
- 12:14 PM Ticket #131 (Write documentation 4a) Schematic overview of BASE) created by
- 12:04 PM Ticket #128 (tomcat5.5 has to be reinstalled after upgrading BASE jars.) updated by
-
Status changed
- 12:04 PM Ticket #130 (Is the java compiler fix still needed for tomcat5.5) updated by
-
Status changed
- 12:04 PM Ticket #130 (Is the java compiler fix still needed for tomcat5.5) created by
- Test a late release of tomcat5.5 to find out whether the recipe on …
- 12:03 PM Ticket #129 (Interface for inheriting annotations) closed by
- duplicate: Same as #96.
- 12:02 PM Ticket #129 (Interface for inheriting annotations) created by
- And add support for using the annotations in the analysis.
- 11:57 AM Ticket #128 (tomcat5.5 has to be reinstalled after upgrading BASE jars.) created by
- 11:57 AM Ticket #127 (Experiment explorer) created by
- Add interface similar to the Experiment explorer found in BASE 1.
- 11:55 AM Ticket #126 (Add interface for managing reporter lists) created by
- It should also be possible to use the reporter lists in the analysis.
- 11:53 AM Ticket #125 (Create filtered bioassay sets) created by
- Add functionality to create filtered bioassay sets.
- 11:51 AM Ticket #124 (Plot function for analysed data) created by
- Plot function similar to the BASE 1 plot function to plot analysed data.
- 9:13 AM Changeset [2074] by
- changed the imports
- 9:05 AM Changeset [2073] by
- write empty string instead of null
- 8:32 AM Ticket #122 (Creation of ArrayDesign: AffyChip check box does not work) closed by
- fixed
- 8:32 AM Changeset [2072] by
- Fixed bug #122: Creation of ArrayDesign: AffyChip check box does not work
Mar 10, 2006:
- 3:32 PM Ticket #123 (The textformat of item types in Edit role ->Permissions doesn't agree ...) updated by
-
Summary changed
- 11:16 AM Ticket #122 (Creation of ArrayDesign: AffyChip check box does not work) updated by
-
Owner, Status changed
- 11:09 AM Ticket #123 (The textformat of item types in Edit role ->Permissions doesn't agree ...) updated by
-
Status changed
- 11:09 AM Ticket #123 (The textformat of item types in Edit role ->Permissions doesn't agree ...) created by
- The Item types under a role's permissions are written in singular …
Mar 9, 2006:
- 12:38 PM Ticket #122 (Creation of ArrayDesign: AffyChip check box does not work) created by
- Despite ticking the AffyChip box, the design is created as non affy
Mar 6, 2006:
- 1:34 PM Changeset [2071] by
- Testprocedures for projectadmin and updated newcommands
- 1:29 PM Changeset [2070] by
- Updated the text and corrected misspellings
Mar 3, 2006:
- 5:08 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Priority, Component changed
This is probably a bug in the AnnotationSet.initPermissions method. …
Mar 2, 2006:
- 11:03 AM Ticket #118 (Not allowed to change password) updated by
-
Component, Owner changed
- 10:21 AM Ticket #117 (Failure to Create Raw BioAssay (tested on 2 different installs: linux ...) updated by
- The demo server has been upgraded and should not show the problem …
- 10:18 AM Changeset [2069] by
- Updated information on downloadable RC1 version.
- 9:30 AM Changeset [2068] by
- Fixed handling of null parameter values. Null values are written as …
Mar 1, 2006:
- 5:31 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Version, Milestone changed
- 5:30 PM Ticket #121 (create new raw bioassay error) updated by
-
Milestone, Version changed
- 5:30 PM Ticket #117 (Failure to Create Raw BioAssay (tested on 2 different installs: linux ...) updated by
-
Milestone changed
- 5:29 PM Ticket #120 (create new experiment error) updated by
-
Milestone changed
- 5:28 PM Ticket #120 (create new experiment error) closed by
- duplicate: Known and fixes #117
- 5:25 PM Ticket #121 (create new raw bioassay error) closed by
- duplicate: Known and fixed #117
- 4:12 PM Ticket #121 (create new raw bioassay error) created by
- java.lang.NullPointerException on page …
- 4:10 PM Ticket #120 (create new experiment error) created by
- java.lang.NullPointerException on page …
Feb 28, 2006:
- 4:17 PM Changeset [2067] by
- Query needs to include shared plugins for users to use all available …
- 1:38 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Status, Component changed
Annotations isnt migrated correct. Permission r in base1 must be … - 12:27 PM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Status, Owner changed
- 11:37 AM Changeset [2066] by
- Checked in information explaining that downloadable RC1 is not the …
- 9:48 AM Changeset [2065] by
- The method getRawDataType didnt return null for id = null
- 9:47 AM Ticket #117 (Failure to Create Raw BioAssay (tested on 2 different installs: linux ...) closed by
- fixed: The method RawDataTypes.getRawDataType(String id) threw an exception …
- 9:02 AM Ticket #119 (can't annotate sample in base 2 demo server) updated by
-
Status, Owner changed
Feb 27, 2006:
- 12:26 PM Ticket #119 (can't annotate sample in base 2 demo server) created by
- Hi Jari/others, When I'm using my guest509 username on the base2 demo …
- 11:34 AM Ticket #118 (Not allowed to change password) created by
- When trying to change my password i get the following error message: …
Feb 26, 2006:
- 10:18 PM Ticket #117 (Failure to Create Raw BioAssay (tested on 2 different installs: linux ...) updated by
-
Owner, Status changed
Creating a new 'Experiment' or 'Raw Bioassay' fails (menu File -> New …
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