Timeline



Feb 24, 2006:

2:35 PM Ticket #8 (PrintMapBlockFileImporter) closed by Jari Häkkinen
fixed
2:17 PM Ticket #117 (Failure to Create Raw BioAssay (tested on 2 different installs: linux ...) created by rocca@…
Dear BASE Attemping to create a Raw Bioassay objects results in the …
1:36 PM Ticket #116 (Analyze of experiment fails) closed by Jari Häkkinen
duplicate: Sorry, this is a known issue and there is a solution, see ticket:99

Feb 23, 2006:

10:42 PM Ticket #9 (Normalization: Lowess) closed by Jari Häkkinen
fixed: It is now a part of the BASE core plug-ins.
10:40 PM Milestone BASE 2.0 RC1 completed
This release is aimed at being the first release that we will …
10:39 PM Ticket #116 (Analyze of experiment fails) created by Jari Häkkinen
The analyze experiment feature does not work. Trying to create a new …
10:13 PM Ticket #115 (DemoServer internal error on startup) closed by Jari Häkkinen
fixed: Tomcat 5 stopped working. Nothing helped, I even resorted to CPR but …
4:22 PM Ticket #115 (DemoServer internal error on startup) created by sdavis2@…
Got this when trying to start the base2 server: Server error! The …
4:05 PM Changeset [2064] by Jari Häkkinen
Fixed spelling error.
3:16 PM Changeset [2063] by Nicklas Nordborg
Releasing RC1
3:10 PM Changeset [2062] by Gregory Vincic
small bug in last query
2:52 PM Changeset [2061] by Johan Enell
Made some corrections on Lowess
2:30 PM Changeset [2060] by Jari Häkkinen
Bumped to RC1.
2:20 PM Changeset [2059] by Jari Häkkinen
Information about people involved in BASE 2, presently and in the past.
2:13 PM Changeset [2058] by Nicklas Nordborg
Make sure the correct web.xml (/src/web.xml.in) is copied by ant dist.
11:42 AM Changeset [2057] by Nicklas Nordborg
Added CompileAll? servlet
8:45 AM Changeset [2056] by Martin Svensson
Correct some misspellings
12:28 AM Changeset [2055] by Jari Häkkinen
Added subversion properties to .html files.
12:22 AM Changeset [2054] by Jari Häkkinen
Added svn:ignore to exclude api direcotry.

Feb 22, 2006:

11:55 PM Changeset [2053] by Jari Häkkinen
Added subversion properties to .xml files.
11:48 PM Changeset [2052] by Jari Häkkinen
Added copyright and license notice.
4:20 PM Changeset [2051] by Martin Svensson
Adapted and updated documents to the new listpages
2:55 PM Changeset [2050] by Nicklas Nordborg
Exclude Oracle JDBC driver from "ant dist"
2:33 PM Ticket #114 (Default values for plugin parameters are not shown.) closed by Nicklas Nordborg
fixed
2:32 PM Changeset [2049] by Nicklas Nordborg
Fixed ticket #114: Default values for plugin parameters are not shown.
2:19 PM Changeset [2048] by Nicklas Nordborg
Directory.createHomeDirectory no longer shares the new directories to …
2:03 PM Changeset [2047] by Nicklas Nordborg
Fixed rounding errors while parsing and formatting byte values.
1:30 PM Changeset [2046] by Nicklas Nordborg
Fixed bug where projects keys didn't get loaded correctly due to a …
12:09 PM Changeset [2045] by Nicklas Nordborg
Fixed problem where the InternalStorageController? sets the location of …
11:02 AM Changeset [2044] by Jari Häkkinen
Updated copyright notice.
10:58 AM Changeset [2043] by Jari Häkkinen
Added information on how to create a plug-in.
10:49 AM Ticket #113 (Re-upload a file should have a checkbox option to verify against old MD5) closed by Nicklas Nordborg
fixed
10:49 AM Changeset [2042] by Nicklas Nordborg
Fixed ticket #113: Re-upload a file should have a checkbox option to …
9:49 AM Ticket #112 (view/download of files with national characters doesn't work) closed by Nicklas Nordborg
fixed: This link may be useful: http://java2.5341.com/msg/76475.html
9:48 AM Changeset [2041] by Nicklas Nordborg
Fixed ticket #112: view/download of files with national characters …
8:49 AM Changeset [2040] by Nicklas Nordborg
Now creates child bioassays. Moved batcher.close() and dc.commit() to …
8:43 AM Ticket #114 (Default values for plugin parameters are not shown.) created by Nicklas Nordborg
The web client ignores default values for plugin parameters and just …

Feb 21, 2006:

4:21 PM Ticket #74 (HibernateUtil doesn't find configuration file if installation path ...) closed by Martin Svensson
fixed
4:20 PM Changeset [2039] by Martin Svensson
Fixed ticket #74: HibernateUtil? doesn't find configuration file if …
3:44 PM Changeset [2038] by Nicklas Nordborg
Added SecondaryStorageController? and InternalStorageController?. More …
3:26 PM Changeset [2037] by Johan Enell
added ignore to log4j.properties
2:56 PM Changeset [2036] by Johan Enell
LowessNormalization? added
2:55 PM Ticket #113 (Re-upload a file should have a checkbox option to verify against old MD5) created by Nicklas Nordborg
If the checkbox is checked the upload will be rejected if the MD5 of …
2:04 PM Ticket #112 (view/download of files with national characters doesn't work) created by Nicklas Nordborg
For example a file named: två View link in browser: …
11:22 AM Ticket #70 (Lazy creation of PreparedStatments in BasicBatcher.) closed by Nicklas Nordborg
wontfix: Well, we are probably better of creating the statements in the …
11:21 AM Changeset [2035] by Nicklas Nordborg
Fixed ticket #70: Lazy creation of PreparedStatments? in BasicBatcher?. …
11:14 AM Ticket #71 (java.sql.Date is hardcoded in BasicBatcher) closed by Nicklas Nordborg
fixed
11:13 AM Changeset [2034] by Nicklas Nordborg
Fixed ticket #71: java.sql.Date is hardcoded in BasicBatcher?
8:36 AM Changeset [2033] by Nicklas Nordborg
Removed unused import
8:25 AM Changeset [2032] by Nicklas Nordborg
Fucking eclipse!
8:23 AM Changeset [2031] by Nicklas Nordborg
Removed unused imports

Feb 20, 2006:

3:59 PM Changeset [2030] by Nicklas Nordborg
Fixed ticket #91: Export fails if there are too many items (MySQL only)
3:59 PM Ticket #91 (Export fails if there are too many items (MySQL only)) closed by Nicklas Nordborg
fixed
12:29 PM Changeset [2029] by Nicklas Nordborg
Fixed ticket #101: Add try / catch around all Query.iterate methods in …
12:27 PM Ticket #101 (Add try / catch around all Query.iterate methods in list pages) closed by Nicklas Nordborg
fixed
11:36 AM Ticket #69 (Funny looking line showing when last tab is visible) closed by Nicklas Nordborg
worksforme
11:29 AM Ticket #80 (RawDataPropertyExpression.getColumn should cache column information) closed by Nicklas Nordborg
fixed
11:26 AM Changeset [2028] by Nicklas Nordborg
Fixed ticket #80: RawDataPropertyExpression?.getColumn should cache …
11:17 AM Changeset [2027] by Gregory Vincic
Fixed column order in the configuration view
10:24 AM Changeset [2026] by Nicklas Nordborg
Added some more intensity formulas to raw data types. Ticket #90: Add …
10:24 AM Ticket #90 (Add more raw data types with intensity formulas to default settings) closed by Nicklas Nordborg
fixed
9:28 AM Changeset [2025] by Nicklas Nordborg
Fixed ticket #68: Application.BUILD should be updated automatically.
9:27 AM Ticket #68 (Application.BUILD should be updated automatically.) closed by Nicklas Nordborg
fixed: The "ant dist" command now uses the "svnversion" command to get the …
8:20 AM Ticket #111 (The User columns don't have the same order when all columns are shown) closed by Nicklas Nordborg
worksforme

Feb 17, 2006:

4:59 PM Changeset [2024] by Martin Svensson
Updated testdocument for List columns,Filter and User admin
4:47 PM Ticket #75 (Remove unused code in migrate package) closed by Gregory Vincic
fixed: Fixed
4:47 PM Changeset [2023] by Gregory Vincic
Fixed ticket #75 removing warnings and unused code
3:51 PM Changeset [2022] by Nicklas Nordborg
Fixed ticket #89: Check list of hardware / software that the …
3:51 PM Ticket #88 (Installation should add print robots) closed by Nicklas Nordborg
fixed
3:50 PM Ticket #89 (Check list of hardware / software that the installation program is adding) closed by Nicklas Nordborg
fixed
3:06 PM Changeset [2021] by Nicklas Nordborg
Install can now update existing database and add missing items.
3:04 PM Ticket #111 (The User columns don't have the same order when all columns are shown) created by Martin Svensson
The columns in userlist don't get the same order when selecting All …
1:48 PM Changeset [2020] by Jari Häkkinen
Using original gif (instead for generated png) image for html.
1:25 PM Changeset [2019] by Jari Häkkinen
Added web dev status figure to the test document.
12:42 PM Changeset [2018] by Nicklas Nordborg
Removed Filter. It has now been completely replaced by ItemContext?.
11:59 AM Changeset [2017] by Nicklas Nordborg
Removed TableInfo? class since all list pages now use the ItemContext?
9:57 AM Changeset [2016] by Nicklas Nordborg
Changed system id:s to upper case
9:49 AM Changeset [2015] by Nicklas Nordborg
Quota now use the new list and view page design
9:29 AM Ticket #110 (Potential threading problem in /www/analyze/index.jsp) closed by Gregory Vincic
fixed: Fixed. Index is now generated with the javascript treeline.js
9:28 AM Changeset [2014] by Gregory Vincic
Fixed ticket #110
9:17 AM Changeset [2013] by Jari Häkkinen
Made section numbers coherrent with the web interface dev status image.
8:53 AM Ticket #31 (Changing list columns - list of visible columns becomes empty) closed by Gregory Vincic
fixed
8:45 AM Changeset [2012] by Nicklas Nordborg
Mime types now use the new list and view page design
8:31 AM Changeset [2011] by Nicklas Nordborg
Quota types now use the new list and view page design
8:24 AM Changeset [2010] by Nicklas Nordborg
File types now use the new list and view page design
8:19 AM Ticket #110 (Potential threading problem in /www/analyze/index.jsp) created by Nicklas Nordborg
The file /www/analyze/index.jsp has declared a: […] The index is …

Feb 16, 2006:

5:38 PM Changeset [2009] by Gregory Vincic
Fixed ticket #31 'Changing list columns - list of visible columns …
3:59 PM Ticket #50 (New list and view page design for Hardware type and Software type) closed by Nicklas Nordborg
fixed
3:55 PM Changeset [2008] by Nicklas Nordborg
Fixed ticket #50: New list and view page design for Hardware type and …
2:37 PM Ticket #28 (Returning to mainpage from viewing all the news) closed by Gregory Vincic
fixed
2:37 PM Changeset [2007] by Gregory Vincic
Fixed ticket #28 'It could be useful to have a way to get back to …
2:26 PM Changeset [2006] by Nicklas Nordborg
Added Main.trimString() javascript function
2:15 PM Ticket #52 (Auto refresh job view when job not done) closed by Gregory Vincic
fixed
2:15 PM Changeset [2005] by Gregory Vincic
Fixing ticket #52. "Job view should be automatically updated every X …
2:05 PM Changeset [2004] by Nicklas Nordborg
Client application admin now use the new list and view page design
1:56 PM Ticket #77 (Well annotations) closed by Gregory Vincic
fixed: Fixed
1:24 PM Changeset [2003] by Nicklas Nordborg
Fixed ticket #105: Load a filter preset gives an unexpected error
1:24 PM Ticket #105 (Load a filter preset gives an unexpected error) closed by Nicklas Nordborg
fixed
12:35 PM Ticket #106 (Export with no exported columns gives an unexpected error) closed by Nicklas Nordborg
fixed
12:35 PM Changeset [2002] by Nicklas Nordborg
Fixed ticket #109: Can't find file 'save_as.jsp' when trying to browse …
12:33 PM Ticket #109 (Can't find file 'save_as.jsp' when trying to browse in Export options) closed by Nicklas Nordborg
fixed
12:14 PM Ticket #25 (Changing information on how to get an account does not propagete to ...) closed by Nicklas Nordborg
fixed
12:14 PM Changeset [2001] by Nicklas Nordborg
Fixed ticket #25: Changing information on how to get an account does …
11:47 AM Changeset [2000] by Gregory Vincic
Fixed ticket #77 and started working on removing unused code (ticket …
11:23 AM Changeset [1999] by Nicklas Nordborg
Fixed ticket #79: LabeledExtract?.getHybridizations need a restriction …
11:23 AM Ticket #79 (LabeledExtract.getHybridizations need a restriction) closed by Nicklas Nordborg
fixed
10:55 AM Ticket #65 (New list and view page design for Reporter types) closed by Nicklas Nordborg
fixed
10:55 AM Changeset [1998] by Nicklas Nordborg
Fixed ticket #65: New list and view page design for Reporter types
10:32 AM Ticket #46 (New list and view page design for News) closed by Nicklas Nordborg
fixed
10:31 AM Changeset [1997] by Nicklas Nordborg
Fixed ticket #46: New list and view page design for News
9:18 AM Ticket #94 (Fix list of pooled samples/extracts/labeled extracts on view pages) closed by Nicklas Nordborg
fixed
9:16 AM Changeset [1996] by Nicklas Nordborg
Fixed ticket #94: Fix list of pooled samples/extracts/labeled extracts …
8:58 AM Ticket #54 (New list and view page design for plugins) closed by Nicklas Nordborg
fixed
8:53 AM Ticket #109 (Can't find file 'save_as.jsp' when trying to browse in Export options) created by Martin Svensson
The client tries to open a file that doesn't exist in Export options …
8:40 AM Changeset [1995] by Nicklas Nordborg
Plugin configurations now use the new list and view page design. This …
8:16 AM Ticket #108 (Logging the change history of an item) created by Nicklas Nordborg
Implement a log function that logs whenever an item is modified. It …
8:12 AM Ticket #107 (Any-to-any relation) created by Nicklas Nordborg
Add functionality that allows creating links between any two types of …

Feb 15, 2006:

4:51 PM Ticket #106 (Export with no exported columns gives an unexpected error) created by Martin Svensson
Trying to Export a list with no columns in exported columns throws an …
4:19 PM Ticket #105 (Load a filter preset gives an unexpected error) created by Martin Svensson
Trying to load a preset filter from the Manage window - throws an …
3:03 PM Changeset [1994] by Nicklas Nordborg
Fixed ticket #104: Add users to a role gives an unexpected error.
3:03 PM Ticket #104 (Add users to a role gives an unexpected error.) closed by Nicklas Nordborg
fixed
1:53 PM Changeset [1993] by Nicklas Nordborg
Plugin admin is now using the new list and view page design
1:51 PM Ticket #104 (Add users to a role gives an unexpected error.) created by Martin Svensson
There is an exception when pressing the button Add users... in Edit …
9:48 AM Changeset [1992] by Gregory Vincic
Added -server flag which should fix the following error Exception in …
9:44 AM Changeset [1991] by Nicklas Nordborg
Plugin types now use the new list and view page design
9:07 AM Changeset [1990] by Nicklas Nordborg
Added jsp.compile target to build.xml which compiles all JSP pages

Feb 14, 2006:

9:06 PM Changeset [1989] by Nicklas Nordborg
Updated development status
6:43 PM Changeset [1988] by Johan Vallon-Christersson
added test for creating a protocol
5:26 PM Ticket #103 (Display name of current item in 'Set access permissions' dialog) created by anonymous
When setting access permissions for an item, the name of the item in …
3:55 PM Changeset [1987] by Nicklas Nordborg
Fixed ticket #57: Plate mappings view page is not complete
3:55 PM Ticket #57 (Plate mappings view page is not complete) closed by Nicklas Nordborg
fixed
3:31 PM Changeset [1986] by Nicklas Nordborg
Fixed ticket #102: User->New... gives: java.lang.NullPointerException?
3:30 PM Ticket #102 (User->New... gives: java.lang.NullPointerException on page ...) closed by Nicklas Nordborg
fixed
3:25 PM Ticket #53 (Annotate items page is bad) closed by Nicklas Nordborg
fixed
3:25 PM Changeset [1985] by Nicklas Nordborg
Fixed ticket #53: Annotate items page is bad
2:49 PM Changeset [1984] by Johan Vallon-Christersson
spelling error
1:42 PM Ticket #102 (User->New... gives: java.lang.NullPointerException on page ...) created by Martin Svensson
Trying to create/add a new user or a new group gives a …
1:23 PM Changeset [1983] by Nicklas Nordborg
Fixed compilation error
1:08 PM Changeset [1982] by Gregory Vincic
Fixing migration bug where users where mapped incorrectly
1:02 PM Changeset [1981] by Nicklas Nordborg
Raw data types are now sorted
12:19 PM Ticket #101 (Add try / catch around all Query.iterate methods in list pages) created by Nicklas Nordborg
If there is an error in the query the page will only display a stack …
12:12 PM Ticket #49 (New list and view page design for Annotation types) closed by Nicklas Nordborg
fixed
12:12 PM Changeset [1980] by Nicklas Nordborg
Fixed ticket #49: New list and view page design for Annotation types
9:58 AM Ticket #100 (IllegalArgumentException occurred calling getter of ...) closed by Nicklas Nordborg
fixed
9:57 AM Changeset [1979] by Nicklas Nordborg
Fixed ticket #100: IllegalArgumentException? occurred calling getter of …
8:07 AM Changeset [1978] by Nicklas Nordborg
ArrayDesignPlate? is child item to ArrayDesign?

Feb 13, 2006:

4:52 PM Ticket #44 (Clean up the User prefences dialog box) closed by Martin Svensson
fixed
4:51 PM Changeset [1977] by Martin Svensson
Fixed ticket #44: Clean up the User prefences dialog box
4:18 PM Ticket #100 (IllegalArgumentException occurred calling getter of ...) created by Nicklas Nordborg
Happens on the View / Files page. Seems to be related to Hibernate …
4:15 PM Ticket #61 (Array design can't be connected to plate) closed by Nicklas Nordborg
fixed
4:00 PM Changeset [1976] by Nicklas Nordborg
Fixed ticket #61: Array design can't be connected to plate
1:58 PM Changeset [1975] by Nicklas Nordborg
Better implementation of HibernateUtil?.isEmptyDatabase
12:07 PM Changeset [1974] by Nicklas Nordborg
Updated to Hibernate 3.1.2 Moved all Hibernate options from …
12:01 PM Changeset [1973] by Nicklas Nordborg
Fixed NPE when not logged in.
11:50 AM Ticket #99 (java.lang.NoSuchMethodError: getHibernateLazyInitializer) closed by Nicklas Nordborg
wontfix
11:49 AM Ticket #99 (java.lang.NoSuchMethodError: getHibernateLazyInitializer) created by Nicklas Nordborg
This bug appears when proxy objects are needed to be initialized from …
11:15 AM Changeset [1972] by Nicklas Nordborg
Now closes the DbControl? in case of an exception
11:07 AM Changeset [1971] by Martin Svensson
Test procedures for listpages and added new commands
9:08 AM Changeset [1970] by Nicklas Nordborg
Edit user updated to new design. Finished ticket #47: New list and …
9:08 AM Ticket #47 (New list and view page design for Users, Groups and Roles) closed by Nicklas Nordborg
fixed

Feb 10, 2006:

4:13 PM Changeset [1969] by Nicklas Nordborg
New files for user admin
4:12 PM Changeset [1968] by Nicklas Nordborg
Changed user admin to new list and view page design Edit user still …
2:54 PM Changeset [1967] by Gregory Vincic
Organizing imports
2:19 PM Changeset [1966] by Nicklas Nordborg
Added help/faq/report bug links to my base page
2:08 PM Ticket #73 (Mouse over highlighting the rows in tables) closed by Nicklas Nordborg
fixed
1:59 PM Changeset [1965] by Nicklas Nordborg
Change roles admin to new list and view page design Changed how …
11:20 AM Changeset [1964] by Gregory Vincic
Correction factor plot tab is hidden for RawBioAssaySets?
11:05 AM Changeset [1963] by Gregory Vincic
Listing plugin parameters in the properties view
10:37 AM Ticket #16 (Configurable link to Report a bug) closed by Nicklas Nordborg
fixed
9:41 AM Changeset [1962] by Martin Svensson
Undo on a wrong commit
9:29 AM Ticket #98 ("Excluded" items are still included if a list is exported) created by Nicklas Nordborg
For all list pages it is possible to specify the ID:s of items to …
9:21 AM Changeset [1961] by Nicklas Nordborg
Added "exclude" option to all list pages. This option excludes items …
9:02 AM Changeset [1960] by Martin Svensson
Fixed ticket #16 Configurable link to Report a bug

Feb 9, 2006:

4:08 PM Changeset [1959] by Nicklas Nordborg
Changed group admin to the new list and view page design
3:23 PM Ticket #63 (Clean up javadoc warnings) closed by Gregory Vincic
fixed: Fixed
3:14 PM Changeset [1958] by Gregory Vincic
Fixed ticket #63
2:43 PM Changeset [1957] by Nicklas Nordborg
SessionControl? ID is now passed on to About dialog box
2:42 PM Changeset [1956] by Nicklas Nordborg
Fixed border around more icon
2:18 PM Changeset [1955] by Nicklas Nordborg
Fixed ticket #87: Installation should create 4 well annotations types …
2:18 PM Ticket #87 (Installation should create 4 well annotations types found in Base 1) closed by Nicklas Nordborg
fixed
2:06 PM Ticket #59 (Correction factor plot) closed by Gregory Vincic
fixed: Correction factor plot is generated by JFreePlotServlet.
2:04 PM Changeset [1954] by Gregory Vincic
Added documentation and example plots
12:59 PM Changeset [1953] by Gregory Vincic
Added optional parameters width, height, format and addCurrentOverviewData
12:58 PM Changeset [1952] by Gregory Vincic
New BioAssays? inherit their parents name
12:04 PM Ticket #93 (Fix list of labeled extracts on View hybridization page) closed by Nicklas Nordborg
fixed
12:03 PM Changeset [1951] by Nicklas Nordborg
Fixed ticket #93: Fix list of labeled extracts on View hybridization page
11:54 AM Ticket #95 (Fix list of raw bioassays on view experiment page) closed by Nicklas Nordborg
fixed
11:52 AM Ticket #97 (Trashcan functionality) created by Nicklas Nordborg
Implement a trashcan functionality in the web interface were a user …
11:50 AM Changeset [1950] by Nicklas Nordborg
Fixed ticket #95: Fix list of raw bioassays on view experiment page
11:18 AM Changeset [1949] by Nicklas Nordborg
Added title attribute to links created by Base.getEncodedName
11:15 AM Ticket #96 (Inherit annotations) created by Nicklas Nordborg
Add web interface for managing inherited annotations.
11:10 AM Ticket #95 (Fix list of raw bioassays on view experiment page) created by Nicklas Nordborg
The list should have the same look and feel as the labeled extracts …
11:09 AM Ticket #94 (Fix list of pooled samples/extracts/labeled extracts on view pages) created by Nicklas Nordborg
The list should have the same look and feel as the labeled extracts …
11:07 AM Ticket #93 (Fix list of labeled extracts on View hybridization page) created by Nicklas Nordborg
Missing link to labeled extract and label
11:05 AM Ticket #56 (Plate view page is not complete) closed by Nicklas Nordborg
fixed
11:05 AM Changeset [1948] by Nicklas Nordborg
Fixed ticket #56: Plate view page is not complete
10:02 AM Changeset [1947] by Gregory Vincic
Added getParents to BioAssay?
9:54 AM Changeset [1946] by Nicklas Nordborg
Added ImaGene? raw data type
9:04 AM Changeset [1945] by Nicklas Nordborg
Fixed ticket #92: Export doesn't work for Raw data
9:03 AM Ticket #92 (Export doesn't work for Raw data) closed by Nicklas Nordborg
fixed

Feb 8, 2006:

3:57 PM Changeset [1944] by Nicklas Nordborg
Fixed ticket #55: Plugin select view generates NullPointerException?
3:56 PM Ticket #55 (Plugin select view generates NullPointerException when plugin ...) closed by Nicklas Nordborg
fixed
2:17 PM Ticket #66 (Missing information in about raw data) closed by Nicklas Nordborg
fixed
2:16 PM Changeset [1943] by Nicklas Nordborg
Fixed ticket #66: Missing information in about raw data Added …
1:39 PM Changeset [1942] by Nicklas Nordborg
TestRawBioAssay? now creates raw bio assay that links to array design …
11:55 AM Ticket #92 (Export doesn't work for Raw data) created by Nicklas Nordborg
Probably because the new "subcontext" setting isn't passed to the …
11:36 AM Ticket #62 (Missing info about Features) closed by Nicklas Nordborg
fixed
11:36 AM Changeset [1941] by Nicklas Nordborg
Fixed ticket #62: Missing info about Features Added reporter and well …
10:59 AM Changeset [1940] by Nicklas Nordborg
Ticket #64: Missing information about wells Added reporter columns to …
10:24 AM Changeset [1939] by Nicklas Nordborg
Fixed ticket #64: Missing information about wells
10:24 AM Ticket #64 (Missing information about wells) closed by Nicklas Nordborg
fixed
9:26 AM Changeset [1938] by Nicklas Nordborg
Added QuantArray? raw data types Added some intensity formulas to other …

Feb 7, 2006:

2:47 PM Changeset [1937] by Nicklas Nordborg
Added ChipSkipper? to raw data types.
2:05 PM Changeset [1936] by Nicklas Nordborg
Fixed tickets: #82 LogExpression? and other mathematical expressions …
2:03 PM Ticket #83 (Add Log2Expression to query api) closed by Nicklas Nordborg
fixed: Added Expressions.log2(x) and Expression.log(n, x)
2:03 PM Ticket #82 (LogExpression and other mathematical expressions uses different ...) closed by Nicklas Nordborg
fixed
1:26 PM Ticket #72 (DiskUsage.getQuery is missing restriction) closed by Nicklas Nordborg
fixed
1:25 PM Changeset [1935] by Nicklas Nordborg
Fixed ticket #72: DiskUsage?.getQuery is missing restriction
1:08 PM Changeset [1934] by Nicklas Nordborg
Fixed compilation error
12:16 PM Ticket #40 (Listing raw data of different raw data types may result in bad HQL) closed by Nicklas Nordborg
fixed
12:13 PM Changeset [1933] by Nicklas Nordborg
Fixed ticket #40: Listing raw data of different raw data types may …
11:48 AM Ticket #51 (File -> New menu is missing several items) closed by Gregory Vincic
fixed: Added new buttons in File->New for each logical item under the View menu.
11:47 AM Changeset [1932] by Gregory Vincic
Fixed ticket #51
11:09 AM Changeset [1931] by Gregory Vincic
Fixed ticket #27
11:08 AM Ticket #27 (Analyze button in the experiment view) closed by Gregory Vincic
fixed: Added analyze button. Only visible if the user has write permissions …
10:51 AM Changeset [1930] by Gregory Vincic
Fixed ticket #45
10:51 AM Ticket #45 (BioAssay presets/filter settings not working) closed by Gregory Vincic
fixed: Presets and default columns are now funktional. Fixing javascript …
10:31 AM Ticket #42 (Add missing columns in BioAssay table view) closed by Gregory Vincic
fixed: All static columns are now selectable.
10:30 AM Changeset [1929] by Gregory Vincic
Added extended property columns
9:45 AM Changeset [1928] by Gregory Vincic
Added LGPL License for the JFreeChart package
9:41 AM Changeset [1927] by Nicklas Nordborg
Added Agilent and GeneTAC raw data types
9:16 AM Changeset [1926] by Gregory Vincic
Presets are now working. Added extra value columns
8:19 AM Ticket #91 (Export fails if there are too many items (MySQL only)) created by Nicklas Nordborg
MySQL's current JDBC driver always loads the entire resultset into …
7:59 AM Changeset [1925] by Gregory Vincic
Removing all warnings shown in javascript console in the firefox browser
7:46 AM Changeset [1924] by Gregory Vincic
Fixed a few of the javadoc warnings
7:41 AM Ticket #48 (Add toolbar in BioAssay table view) closed by Gregory Vincic
fixed: Toolbar is now showing one button 'Columns'

Feb 6, 2006:

11:19 PM Changeset [1923] by Nicklas Nordborg
Removed temporary workarounds for Oracle.
11:13 PM Changeset [1922] by Nicklas Nordborg
Experimental support for Oracle (doesn't pass all tests) Removed …
8:44 PM Changeset [1921] by Nicklas Nordborg
Updated development status
4:03 PM Changeset [1920] by Gregory Vincic
Fixed index out of range exception when getNumSpots is different from …
3:44 PM Changeset [1919] by Nicklas Nordborg
Added SpotFinder? to raw data types.
3:36 PM Ticket #58 (Overview plot) closed by Gregory Vincic
fixed: Overview plots are generated by the JFreePlotServlet
2:59 PM Changeset [1918] by Gregory Vincic
Initial revision of the JFreePlotServlet
2:58 PM Changeset [1917] by Nicklas Nordborg
Re-added "Mark as read" function to message list that was accidentally …
2:57 PM Changeset [1916] by Gregory Vincic
Removing unused imports
2:46 PM Changeset [1915] by Nicklas Nordborg
Added more intensity formulas to Genepix raw data type Added …
1:52 PM Changeset [1914] by Nicklas Nordborg
Fixed bad OR operation to AND
12:24 PM Ticket #3 (Update doesn't create indexes) reopened by Nicklas Nordborg
12:22 PM Ticket #76 (initdb drops an existing database) closed by Nicklas Nordborg
fixed
12:21 PM Changeset [1913] by Nicklas Nordborg
Fixed bug #76: initdb drops an existing database Added updatedb.sh …
12:15 PM Changeset [1912] by Nicklas Nordborg
Added Affymetric raw data type
12:03 PM Changeset [1911] by Jari Häkkinen
Added keyword.
11:55 AM Changeset [1910] by Jari Häkkinen
Added tags to user action. Added all web gui test modules source .tex …
10:45 AM Changeset [1909] by Nicklas Nordborg
Fixed bug #36: Login with a deleted user account
10:45 AM Ticket #36 (Login with a deleted user account) closed by Nicklas Nordborg
fixed
10:37 AM Ticket #41 (Dynamically recolor rows in lists) closed by Nicklas Nordborg
fixed
10:37 AM Changeset [1908] by Nicklas Nordborg
Dynamically recolor rows in lists (Ticket #41)
9:55 AM Ticket #67 (Welcome to BASE page) closed by Nicklas Nordborg
fixed
9:54 AM Changeset [1907] by Nicklas Nordborg
Added information to welcome page
8:14 AM Ticket #90 (Add more raw data types with intensity formulas to default settings) created by Nicklas Nordborg
8:14 AM Ticket #89 (Check list of hardware / software that the installation program is adding) created by Nicklas Nordborg
8:13 AM Ticket #88 (Installation should add print robots) created by Nicklas Nordborg
8:12 AM Ticket #87 (Installation should create 4 well annotations types found in Base 1) created by Nicklas Nordborg
8:10 AM Ticket #86 (New importer: Plate mapping) created by Nicklas Nordborg
8:10 AM Ticket #85 (Import plugins should specify filter for FileType) created by Nicklas Nordborg
8:09 AM Ticket #84 (getRequestInformation returns TODO in description fields for many plugins) created by Nicklas Nordborg
Add relevant information for each plugin
8:08 AM Ticket #83 (Add Log2Expression to query api) created by Nicklas Nordborg
8:08 AM Ticket #82 (LogExpression and other mathematical expressions uses different ...) created by Nicklas Nordborg
8:06 AM Ticket #81 (SessionControl should be able to assign default groups and roles to ...) created by Nicklas Nordborg
8:06 AM Ticket #80 (RawDataPropertyExpression.getColumn should cache column information) created by Nicklas Nordborg
8:05 AM Ticket #79 (LabeledExtract.getHybridizations need a restriction) created by Nicklas Nordborg
As it is now, it returns all hybridizations.

Feb 3, 2006:

5:16 PM Ticket #78 (pinbase median ratio normalization) created by Johan Enell
Make the median ration normalizer pinbased using the information of blocks
5:13 PM Changeset [1906] by Johan Enell
MedianRatioNormalization? added
4:10 PM Ticket #77 (Well annotations) created by Gregory Vincic
Well annotations should be migrated. Annotation types should be …
4:08 PM Ticket #76 (initdb drops an existing database) created by Nicklas Nordborg
Not good! You data in the database is lost.
4:07 PM Ticket #75 (Remove unused code in migrate package) created by Gregory Vincic
Fix warnings shown in Eclipse for migration classes
4:07 PM Ticket #74 (HibernateUtil doesn't find configuration file if installation path ...) created by Nicklas Nordborg
The space get encoded like %20, which is not interpreted correctly by …
4:05 PM Ticket #73 (Mouse over highlighting the rows in tables) created by Gregory Vincic
Highlight each row the mouse pointer hovers over.
4:05 PM Ticket #72 (DiskUsage.getQuery is missing restriction) created by Nicklas Nordborg
Must only load disk usage for the currently logged in user.
4:05 PM Ticket #71 (java.sql.Date is hardcoded in BasicBatcher) created by Nicklas Nordborg
If we get timestamp columns this code will break.
4:04 PM Ticket #70 (Lazy creation of PreparedStatments in BasicBatcher.) created by Nicklas Nordborg
Now they are always created when the BasicBatcher? object is created.
4:03 PM Ticket #69 (Funny looking line showing when last tab is visible) created by Gregory Vincic
When selecting the last tab in Analysis -> BioAssaySet? view the bottom …
4:03 PM Ticket #68 (Application.BUILD should be updated automatically.) created by Nicklas Nordborg
If possible, this value should be updated when doing an "ant package" …
4:02 PM Ticket #67 (Welcome to BASE page) created by Nicklas Nordborg
Should list some important information like, new messages, news, disk …
4:01 PM Ticket #66 (Missing information in about raw data) created by Nicklas Nordborg
No information about raw data, reporter or well.
4:00 PM Ticket #65 (New list and view page design for Reporter types) created by Nicklas Nordborg
3:59 PM Ticket #64 (Missing information about wells) created by Nicklas Nordborg
No reporter information
3:59 PM Ticket #63 (Clean up javadoc warnings) created by Gregory Vincic
Clean up 'ant javadoc' warnings generated during 'ant javadoc'
3:59 PM Ticket #62 (Missing info about Features) created by Nicklas Nordborg
No information about reporter and wells
3:58 PM Ticket #61 (Array design can't be connected to plate) created by Nicklas Nordborg
Add user interface for doing that.
3:58 PM Ticket #60 (BioAssay data export) created by Gregory Vincic
Exporting BioAssay? data from the table view of BioAssay? data.
3:56 PM Ticket #59 (Correction factor plot) created by Gregory Vincic
Add correction factor plot to the analysis view.
3:55 PM Ticket #58 (Overview plot) created by Gregory Vincic
Add overview plot to the analysis view.
3:55 PM Ticket #57 (Plate mappings view page is not complete) created by Nicklas Nordborg
Missing information about mappigns details
3:54 PM Ticket #56 (Plate view page is not complete) created by Nicklas Nordborg
Missing information about parent plates.
3:53 PM Ticket #55 (Plugin select view generates NullPointerException when plugin ...) created by Gregory Vincic
Plugin select view generates NullPointerException? when plugin …
3:52 PM Ticket #54 (New list and view page design for plugins) created by Nicklas Nordborg
3:52 PM Ticket #53 (Annotate items page is bad) created by Nicklas Nordborg
Make i more like the page for entering paramters for plugins.
3:51 PM Ticket #52 (Auto refresh job view when job not done) created by Gregory Vincic
Job view should be automatically updated every X seconds when the job …
3:50 PM Ticket #51 (File -> New menu is missing several items) created by Gregory Vincic
File->New menu should contain several items that can be created …
3:49 PM Ticket #50 (New list and view page design for Hardware type and Software type) created by Nicklas Nordborg
3:49 PM Ticket #49 (New list and view page design for Annotation types) created by Nicklas Nordborg
3:48 PM Ticket #48 (Add toolbar in BioAssay table view) created by Gregory Vincic
Toolbar containing "columns" button is missing in the BioAssay? table view
3:48 PM Ticket #47 (New list and view page design for Users, Groups and Roles) created by Nicklas Nordborg
3:48 PM Ticket #46 (New list and view page design for News) created by Nicklas Nordborg
3:47 PM Ticket #45 (BioAssay presets/filter settings not working) created by Gregory Vincic
Javascripts that handle presets/filter selections are missing.
3:47 PM Ticket #44 (Clean up the User prefences dialog box) created by Nicklas Nordborg
Remove the unused tab.
3:46 PM Ticket #43 (New icons in web interface) created by Nicklas Nordborg
Most icons used in the web interface are copies of the same image. …
3:46 PM Ticket #42 (Add missing columns in BioAssay table view) created by Gregory Vincic
BioAssay? table view contains only a few hardcoded columns.
3:45 PM Ticket #41 (Dynamically recolor rows in lists) created by Nicklas Nordborg
When moving the mouse over rows in a list page, the current row should …
12:24 PM Changeset [1905] by Johan Enell
corrected inster(query) javadoc
11:09 AM Changeset [1904] by Johan Enell
sqrt added to expressions
11:08 AM Changeset [1903] by Johan Enell
reset() sets firstResult and maxResult to 0
10:39 AM Changeset [1902] by Jari Häkkinen
Added link to GUI test doc.
10:36 AM Changeset [1901] by Jari Häkkinen
Bumped alpha version, added new information.
10:24 AM Changeset [1900] by Gregory Vincic
Fixing javadoc warnings
9:41 AM Ticket #40 (Listing raw data of different raw data types may result in bad HQL) created by Nicklas Nordborg
If you when listing raw data from one raw data type adds a filter or …

Feb 2, 2006:

5:10 PM Changeset [1899] by Jari Häkkinen
Added test procedures (to be) document.
4:08 PM Changeset [1898] by Martin Svensson
Removed CR at end of line.
3:40 PM Changeset [1897] by Nicklas Nordborg
Added SelectedExpression?
2:42 PM Changeset [1896] by Nicklas Nordborg
The option "In current project" in the preset list should not be …
2:35 PM Changeset [1895] by Nicklas Nordborg
Projects now use the new list and view page design
1:51 PM Changeset [1894] by Johan Enell
bugfix onBeforeCommit now sets numSpots
1:17 PM Changeset [1893] by Nicklas Nordborg
View/Sessions? now use the new list page design
12:43 PM Changeset [1892] by Nicklas Nordborg
Updated messages for server restart
11:51 AM Changeset [1891] by Nicklas Nordborg
Fixed NPE in IntensityCalculatorUtil? if no progress reporter was specified.
11:49 AM Changeset [1890] by Nicklas Nordborg
Application.stop now unloads all loaded configuration settings so …
11:18 AM Changeset [1889] by Gregory Vincic
Added TableColumn? class
10:26 AM Changeset [1888] by Nicklas Nordborg
Added Query.count() method
9:40 AM Changeset [1887] by Nicklas Nordborg
ItemContext?.configureQuery now automatically joins required tables
9:22 AM Ticket #38 (Store error information for a job) closed by Nicklas Nordborg
fixed: It was possible to store the stack trace in the status message field.
9:20 AM Changeset [1886] by Nicklas Nordborg
Save stack trace in job's status message if there is an error. Fixed …
8:45 AM Changeset [1885] by Nicklas Nordborg
Messages now use the new list and view page design
8:36 AM Changeset [1884] by Gregory Vincic
Extracted stylesheet

Feb 1, 2006:

4:55 PM Ticket #39 (Handling a string with only blank space in required fields) created by Martin Svensson
When trying to submit a required textfield that just contains blank …
4:09 PM Changeset [1883] by Jari Häkkinen
Clarified default user id and password for BASE 2 web client.
4:02 PM Changeset [1882] by Nicklas Nordborg
ItemContext?.configureQuery can now add sort order and filters, but …
2:20 PM Changeset [1881] by Nicklas Nordborg
Jobs now use the new list and view page design
1:47 PM Ticket #38 (Store error information for a job) created by Nicklas Nordborg
If a job complets with an error, there is only a short status message …
1:08 PM Ticket #37 (New/Edit user - Handling of duplicate login) created by Martin Svensson
There is an nondescriptuve error message when trying to give an user a …
12:11 PM Ticket #12 (Plugin configuration forgets parameter values) closed by Nicklas Nordborg
fixed
12:11 PM Changeset [1880] by Nicklas Nordborg
Fixed bug #12: Plugin configuration forgets parameter values
11:20 AM Changeset [1879] by Nicklas Nordborg
ItemContext? now has a skeleton for configuring a DynamicQuery?
11:10 AM Ticket #36 (Login with a deleted user account) created by Martin Svensson
It is possible to login on an useraccount even if it has been deleted.
11:00 AM Changeset [1878] by Gregory Vincic
Added bioassay table which now shows all intensity rows
10:41 AM Changeset [1877] by Nicklas Nordborg
Export of raw data is now working as well
10:40 AM Changeset [1876] by Nicklas Nordborg
Forgot to include this file in last commit
9:45 AM Changeset [1875] by Nicklas Nordborg
Fixed simple export plugin so the old export function works with the …

Jan 31, 2006:

5:09 PM Changeset [1874] by Gregory Vincic
Fixed toolbar borders when mixing table.css and toolbar.css …
4:02 PM Ticket #21 (ProgressReporter in IntensityCalculatorUtil methods) closed by Nicklas Nordborg
fixed
4:02 PM Changeset [1873] by Nicklas Nordborg
Fixed bug #21: ProgressReporter? in IntensityCalculatorUtil? methods
2:45 PM Changeset [1872] by Nicklas Nordborg
Entire biomaterials section now use the new list and view page design
1:05 PM Ticket #33 (The fields in "Columns " button are sometimes too short, i.e. the text ...) closed by Gregory Vincic
fixed: Text within selectboxes is now visible. The is wider in default mode …
1:05 PM Changeset [1871] by Gregory Vincic
Fixing ticket #33
11:22 AM Changeset [1870] by Gregory Vincic
Added experiment info above the analysis tree. The default job name is …
9:52 AM Ticket #35 (Edit annotations doesn't show all annotation types) closed by Nicklas Nordborg
invalid: It wasn't a bug, it was just a link with wrong arguments (ie. not the …
8:50 AM Ticket #35 (Edit annotations doesn't show all annotation types) created by Nicklas Nordborg
It seems like the form editing annotations doesn't show annotation …
8:26 AM Ticket #34 (Plugin for spot image generation) closed by Nicklas Nordborg
fixed
8:25 AM Changeset [1869] by Nicklas Nordborg
Added SpotImateCreator? plugin

Jan 30, 2006:

11:09 PM TracCgi edited by trac
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11:09 PM TracInterfaceCustomization created by trac
11:09 PM TracUpgrade edited by trac
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11:09 PM TracUnicode edited by trac
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11:09 PM TracAccessibility edited by trac
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11:09 PM TracEnvironment edited by trac
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11:09 PM TracFastCgi edited by trac
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11:09 PM TracGuide edited by trac
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11:09 PM TracImport edited by trac
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11:09 PM TracIni edited by trac
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11:09 PM TracInstall edited by trac
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11:09 PM TracLinks edited by trac
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11:09 PM TracModPython edited by trac
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11:09 PM TracNotification edited by trac
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11:09 PM TracPermissions edited by trac
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11:09 PM TracPlugins edited by trac
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11:09 PM TracQuery edited by trac
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11:09 PM TracReports edited by trac
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11:09 PM TracRoadmap edited by trac
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11:09 PM TracRss edited by trac
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11:09 PM TracStandalone edited by trac
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11:09 PM TracSupport edited by trac
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11:09 PM TracSyntaxColoring edited by trac
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11:09 PM TracTickets edited by trac
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11:09 PM TracTicketsCustomFields edited by trac
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11:09 PM TracTimeline edited by trac
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11:09 PM TracWiki edited by trac
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11:09 PM WikiDeletePage edited by trac
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11:09 PM WikiFormatting edited by trac
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11:09 PM WikiMacros edited by trac
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11:09 PM WikiPageNames edited by trac
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11:09 PM WikiProcessors edited by trac
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11:09 PM WikiRestructuredTextLinks edited by trac
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2:07 PM Ticket #34 (Plugin for spot image generation) created by Nicklas Nordborg
The generation of spot images is now called directly from a JSP page. …
2:02 PM Ticket #32 (A plugin must set a response status ) closed by Nicklas Nordborg
fixed
2:02 PM Changeset [1868] by Nicklas Nordborg
Fixed bug #32: A plugin must set a response status
1:56 PM Changeset [1867] by Gregory Vincic
BioAssaySet? view uses the new tabbed design.
1:43 PM Changeset [1866] by Nicklas Nordborg
BioSources? now use the new list and view page design
1:17 PM Changeset [1865] by Nicklas Nordborg
Fixed column widths for the new list design
1:06 PM Changeset [1864] by Nicklas Nordborg
Labels now use the new list and view page design
12:52 PM Changeset [1863] by Nicklas Nordborg
New view page design for: Protocol, Protocol type, Hardware, Software …
12:00 PM Changeset [1862] by Nicklas Nordborg
Plates now use the new view page design Wells and plate events added …
9:16 AM Changeset [1861] by Nicklas Nordborg
Arra slides, batches and design now use the new view page design
9:15 AM Changeset [1860] by Nicklas Nordborg
Added visible attribute to Tab taglib
9:09 AM Changeset [1859] by Gregory Vincic
Passed the job to the IntensityCalculatorUtil?
8:30 AM Changeset [1858] by Nicklas Nordborg
Hybridizations now use the new view page design

Jan 27, 2006:

2:55 PM Changeset [1857] by Gregory Vincic
Added view_bioassayset.jsp
2:51 PM Changeset [1856] by Nicklas Nordborg
View scan now use the new view page design Added pages for scan images
1:46 PM Changeset [1855] by Nicklas Nordborg
View raw bioassays now use the new view page design
12:05 PM Changeset [1854] by Nicklas Nordborg
View experiment now use the new view page design
11:57 AM Changeset [1853] by Nicklas Nordborg
View reporter now use the new view page design
11:47 AM Changeset [1852] by Nicklas Nordborg
Plate geometries use the new view page design
11:39 AM Changeset [1851] by Nicklas Nordborg
New design for view and list pages Plate types is the first example

Jan 26, 2006:

3:48 PM Changeset [1850] by Nicklas Nordborg
Plate mapping now uses the new list design
3:05 PM Ticket #30 (Preset is not removed from drop-downlist after it had been deleted) closed by Nicklas Nordborg
fixed: Sort of fixed. The preset is not removed from the list, but no …
3:04 PM Changeset [1849] by Nicklas Nordborg
Partly fixed bug #30: Preset is not removed from drop-downlist after …
2:22 PM Changeset [1848] by Nicklas Nordborg
Plate types are ownable and the owner is now displayed and included in …
2:15 PM Changeset [1847] by Nicklas Nordborg
Plates now use the new list design
1:47 PM Changeset [1846] by Martin Svensson
First revision
12:03 PM Changeset [1845] by Nicklas Nordborg
Added log4j.properties.in and removed log4j.properties so everyone can …
11:57 AM Ticket #24 (Adding an administrator name with non-US characters looks strange) closed by Nicklas Nordborg
fixed: Updated base.config.in to not include any characterEncoding setting.
11:56 AM Ticket #3 (Update doesn't create indexes) closed by Nicklas Nordborg
fixed
11:54 AM Changeset [1844] by Nicklas Nordborg
Switched from SchemaUpdate? to SchemaExport? in createStaticTables so …
11:53 AM Ticket #33 (The fields in "Columns " button are sometimes too short, i.e. the text ...) created by Jari Häkkinen
When I'm editing "Set column order and visiblity" in the "edit raw …
11:51 AM Ticket #22 (Server configuration. Setting unlimited with G or Gb does not change ...) closed by Nicklas Nordborg
fixed: i) Fixed. Tried to stora too large value in an int. Changed to long.
11:08 AM Ticket #32 (A plugin must set a response status ) created by Nicklas Nordborg
If a plugin doesn't set a respose status, null is returned to the web …
10:36 AM Ticket #31 (Changing list columns - list of visible columns becomes empty) created by Martin Svensson
Webpage: Experiments Step1.Select 'Default Columns' in the drop …
8:40 AM Ticket #18 (BioMaterialEvent.addSource and BioMaterialEvent.removeSource doesn't work) closed by Nicklas Nordborg
fixed
8:37 AM Changeset [1843] by Nicklas Nordborg
Fixed bug #18: BioMaterialEvent?.addSource and …
8:36 AM Changeset [1842] by Nicklas Nordborg
vertical align of td and th removed since it didn't work as intended
12:35 AM Changeset [1841] by Jari Häkkinen
Fixed latex to html translation.
Note: See TracTimeline for information about the timeline view.