Timeline



Dec 2, 2005:

5:52 PM Changeset [1684] by Gregory Vincic
Initial revision
5:51 PM Changeset [1683] by Gregory Vincic
Major rewrite. All SQL statements are now defined in a seperate file. …
2:25 PM Changeset [1682] by Nicklas Nordborg
Added reporter lists
1:34 PM Changeset [1681] by Nicklas Nordborg
Fixed bug where properties in ArrayDesignBlock:s didn't get updated
11:30 AM Changeset [1680] by Nicklas Nordborg
Fixed spot images servlet so the images are cached by the browser.
10:52 AM Changeset [1679] by Nicklas Nordborg
Added some raw data types and hardware / software in install

Dec 1, 2005:

4:07 PM Changeset [1678] by Johan Enell
changed mysql jdbc to version 3.1.12
2:36 PM Changeset [1677] by Nicklas Nordborg
Fixed bug in test for encrypted password
2:32 PM Changeset [1676] by Nicklas Nordborg
Fixed installation problem, doesn't have to start timer and job queue
1:44 PM Changeset [1675] by Nicklas Nordborg
Added View / experiments
11:16 AM Changeset [1674] by Nicklas Nordborg
It is now possible to generate spot images through the web interface
8:50 AM Changeset [1673] by Nicklas Nordborg
Added Spot images servlet so we can view spot images of raw data

Nov 30, 2005:

2:52 PM Changeset [1672] by Nicklas Nordborg
Added View/Raw? bioassays
9:14 AM Changeset [1671] by Nicklas Nordborg
Updated list of development ideas

Nov 26, 2005:

8:56 AM Changeset [1670] by Jari Häkkinen
Added some svn: properties.

Nov 25, 2005:

2:41 PM Changeset [1669] by Nicklas Nordborg
Added features to array design
1:02 PM Changeset [1668] by Gregory Vincic
Changed time calculation, which should eliminate the negative numbering.
12:20 PM Changeset [1667] by Nicklas Nordborg
Added print robot and protocol to array batch
11:48 AM Changeset [1666] by Nicklas Nordborg
Added basic administration of Array design, Array batch, Array slide
10:57 AM Changeset [1665] by Gregory Vincic
Removed some logging
9:32 AM Changeset [1664] by Nicklas Nordborg
Made password encyption more secure by generating random challenge …

Nov 24, 2005:

3:33 PM Changeset [1663] by Nicklas Nordborg
Added View sessions
2:30 PM Changeset [1662] by Nicklas Nordborg
Added javascript MD5 library
2:30 PM Changeset [1661] by Nicklas Nordborg
Added support for password encryption when loggin in
1:15 PM Changeset [1660] by Nicklas Nordborg
Implemented interface for merging of plates
10:46 AM Changeset [1659] by Nicklas Nordborg
Added image to plate mapping
8:42 AM Changeset [1658] by Nicklas Nordborg
Can now add annotations to wells

Nov 23, 2005:

8:31 PM Changeset [1657] by Nicklas Nordborg
Updated development status
4:06 PM Changeset [1656] by Nicklas Nordborg
Added Wells admin
2:58 PM Changeset [1655] by Nicklas Nordborg
Added plate events admin
2:55 PM Changeset [1654] by Nicklas Nordborg
Added HQL right join and support for WITH restriction in join clause
9:41 AM Changeset [1653] by Nicklas Nordborg
Added plate event types administration
8:54 AM Ticket #11 (Migration: AnnotationTransfer InvalidDataException not caught) closed by Gregory Vincic
fixed: Fixed. There is a problem concerning that Base 1 allows annotations …

Nov 22, 2005:

4:04 PM Changeset [1652] by Nicklas Nordborg
Added Array LIMS / plates
3:00 PM Changeset [1651] by Gregory Vincic
Removed some logging
2:59 PM Changeset [1650] by Nicklas Nordborg
Fixed bad UTF-8 characters
2:36 PM Changeset [1649] by Nicklas Nordborg
Fixed bug in ReporterFlatFileImporter? (Not converting values to …
1:37 PM Changeset [1648] by Gregory Vincic
Fixed bug with unavailable ArraySlides? and removed some logging
9:41 AM Changeset [1647] by Nicklas Nordborg
Plugin configuration

Nov 21, 2005:

2:44 PM Changeset [1646] by Nicklas Nordborg
Added plugin configuration admin
2:26 PM Changeset [1645] by Gregory Vincic
Setting different SELECT limit if QUICK_TRANSFER = yes
2:19 PM Changeset [1644] by Gregory Vincic
Removed calls to depraceted methods and fixed invalid use of null in …
10:53 AM Changeset [1643] by Gregory Vincic
Catching NumberFormatException?
10:34 AM Changeset [1642] by Gregory Vincic
Removed some logging
9:50 AM Ticket #11 (Migration: AnnotationTransfer InvalidDataException not caught) created by Gregory Vincic
The setValue methods on lines 143 through 156 in …
9:45 AM Changeset [1641] by Gregory Vincic
Annotations generating InvalidDataException? are not migrated
8:17 AM Changeset [1640] by Nicklas Nordborg
Abstract flat file importer now checks for thread interruption

Nov 18, 2005:

8:04 PM Changeset [1639] by Nicklas Nordborg
Set ID and Date keyword
8:00 PM Changeset [1638] by Nicklas Nordborg
Updated development status
3:24 PM Changeset [1637] by Gregory Vincic
Fixed bug with equal filenames and removed some logging
2:54 PM Changeset [1636] by Nicklas Nordborg
Jobs are not shareable, added server to view job
2:42 PM Changeset [1635] by Nicklas Nordborg
Updated some javadoc
2:00 PM Changeset [1634] by Nicklas Nordborg
Internal job queue is now functional
11:11 AM Changeset [1633] by Gregory Vincic
Logs migration ending
10:29 AM Changeset [1632] by Johan Enell
Added methods to handle String to int conversions
9:47 AM Changeset [1631] by Nicklas Nordborg
Modified SessionControl?.impersonateLogin() to create a new …
9:33 AM Changeset [1630] by Gregory Vincic
Fixed logging

Nov 17, 2005:

1:36 PM Changeset [1629] by Nicklas Nordborg
Added first version of internal job queue (not working)
1:21 PM Changeset [1628] by Johan Enell
added some svn properties
1:05 PM Changeset [1627] by Johan Enell
section tested
10:56 AM Changeset [1626] by Nicklas Nordborg
Added two new columns to job: server and estimated execution time. …
9:34 AM Changeset [1625] by Gregory Vincic
Changed error output to info
9:05 AM Changeset [1624] by Nicklas Nordborg
Added Log4j logger to migration since it didn't compile now that the …

Nov 16, 2005:

4:07 PM Changeset [1623] by Nicklas Nordborg
Removed Application.log methods
2:55 PM Changeset [1622] by Nicklas Nordborg
Plugins now leave better status reporters to jobs and messages.
1:32 PM Changeset [1621] by Nicklas Nordborg
Fixed bugs in configure columns and export
1:01 PM Changeset [1620] by Nicklas Nordborg
Added submit_jobs.jsp
12:57 PM Changeset [1619] by Nicklas Nordborg
Added View/Jobs?
11:23 AM Changeset [1618] by Nicklas Nordborg
Better file selection when importing File upload is now possible when …
10:52 AM Changeset [1617] by Nicklas Nordborg
Added some functions for better auto-detection of file formats

Nov 15, 2005:

4:53 PM Changeset [1616] by Johan Enell
section added to flatfileparser
4:10 PM Changeset [1615] by Nicklas Nordborg
Fixed bug in property value if no DbControl? was set
4:04 PM Changeset [1614] by Nicklas Nordborg
Fixed bug in column selection
3:52 PM Changeset [1613] by Nicklas Nordborg
First version of import reporters is now working
12:27 PM Changeset [1612] by Nicklas Nordborg
Started to implement import function
9:41 AM Changeset [1611] by Nicklas Nordborg
Added import_disabled.gif
9:22 AM Changeset [1610] by Nicklas Nordborg
Fixed classpath to log4j
9:21 AM Changeset [1609] by Nicklas Nordborg
Generic export can now handle data layer items
8:56 AM Changeset [1608] by Nicklas Nordborg
Fixed several bugs in Metadata to get View/Reporters? to work

Nov 14, 2005:

8:02 PM Changeset [1607] by Nicklas Nordborg
Updated development status
4:07 PM Changeset [1606] by Nicklas Nordborg
Added View/Reporters?
2:54 PM Changeset [1605] by Nicklas Nordborg
ExtendedProperty?.getTitle now returns the title instead of the name
11:27 AM Ticket #10 (Analysis: Hierarchical clustering) created by Johan Enell
Hierarchical clustering, bottom-up. The two closest points are merged …
11:08 AM Ticket #9 (Normalization: Lowess) created by Johan Enell
A plug-in for lowess normalization. For more info on LOWESS: …
10:55 AM Ticket #8 (PrintMapBlockFileImporter) created by Johan Enell
A importer plugin-in for print maps.
10:50 AM Ticket #7 (ReporterMapFlatFileImporter) closed by Johan Enell
fixed
10:50 AM Ticket #7 (ReporterMapFlatFileImporter) created by Johan Enell
A importer plug-in for reporter maps.
10:48 AM Ticket #6 (ReporterFlatFileImporter) closed by Johan Enell
fixed
10:48 AM Ticket #6 (ReporterFlatFileImporter) created by Johan Enell
A importer plug-in for reporter
10:46 AM Ticket #5 (RawDataFlatFileImporter) closed by Johan Enell
fixed
10:46 AM Ticket #5 (RawDataFlatFileImporter) created by Johan Enell
A importer plug-in for rawdata.
10:44 AM Ticket #4 (PlateFlatFileImporter) closed by Johan Enell
fixed
10:43 AM Ticket #4 (PlateFlatFileImporter) created by Johan Enell
An importer plug-in for plates.
10:41 AM Changeset [1604] by Nicklas Nordborg
Added ReporterType? admin
10:40 AM Changeset [1603] by Nicklas Nordborg
Added Removable interface to ReporterType?
10:23 AM Changeset [1602] by Nicklas Nordborg
Bug in reload timer. The same timer can't be reused.
9:33 AM Changeset [1601] by Nicklas Nordborg
Removed Swing timer from Keyring and replaced it with TimerTask?.
9:13 AM Changeset [1600] by Nicklas Nordborg
Added "debugEnabled" boolean so we don't have to generate log messages …
8:53 AM Changeset [1599] by Nicklas Nordborg
Moved log statements to log things before they happened.
8:43 AM Changeset [1598] by Nicklas Nordborg
Missing quotes around the "id" column when using sequences.
8:42 AM Changeset [1597] by Nicklas Nordborg
Fixed a bug where "ch1" was always selected instead of "ch1", …
8:40 AM Changeset [1596] by Nicklas Nordborg
Made dynamic table names shorter, since some databases (ie. Oracle) …
8:39 AM Changeset [1595] by Nicklas Nordborg
Fixed bug in TestUser? causing it to fail if executed on a too fast …
8:35 AM Changeset [1594] by Nicklas Nordborg
Fixed bug in FlatFileParser? which returned empty strings instead of …
8:06 AM Ticket #3 (Update doesn't create indexes) created by Nicklas Nordborg
When using the update option for the installation program …

Nov 11, 2005:

4:06 PM Changeset [1593] by Nicklas Nordborg
Default logging level set to warn
4:04 PM Changeset [1592] by Nicklas Nordborg
Added net.sf.basedb.core logger and removed calls to Application.log …
3:38 PM Changeset [1591] by Nicklas Nordborg
Replaced the Swing timer in Application with a jva.util.Timer running …
12:12 PM Changeset [1590] by Nicklas Nordborg
Fixed security hole in RawFunction? and changed Metadata to help with that.
9:56 AM Changeset [1589] by Nicklas Nordborg
Batch API and Query API now uses Log4j to log debuggin information. …
8:28 AM Changeset [1588] by Nicklas Nordborg
Fixed bugs in Install causing transactions to be left open if an item …
8:00 AM Changeset [1587] by Nicklas Nordborg
Added backticks to filters created by …
7:52 AM Changeset [1586] by Nicklas Nordborg
Help is now stored in table HelpTexts? since there was a problem with …

Nov 10, 2005:

4:02 PM Changeset [1585] by Nicklas Nordborg
IntensityCalculatorUtil? now checks that all raw bioassays are using …
3:00 PM Changeset [1584] by Nicklas Nordborg
Updated documentation and clean up some code. Fixed bug in …

Nov 9, 2005:

11:38 PM Ticket #2 (ability to add image files as annotation for samples) created by anup.parikh@…
We have images, of all our mutants under different conditions, that we …
4:00 PM Changeset [1583] by Nicklas Nordborg
Updated documentation and cleaned up code.
12:23 PM Changeset [1582] by Nicklas Nordborg
Fixed bug in TestExperiment?
12:15 PM Changeset [1581] by Nicklas Nordborg
Moved around JepUtil? to it's own package (net.sf.basedb.util.jep). …
12:15 PM Changeset [1580] by Gregory Vincic
Added ExperimentTransfer?

Nov 8, 2005:

7:09 PM Changeset [1579] by Johan Enell
added some @Override annotations
4:06 PM Changeset [1578] by Nicklas Nordborg
Added JepUtil? and TestJep? Added Log10Expression and LnExpression?
1:01 PM Changeset [1577] by Nicklas Nordborg
Can now create root bioassayset using INSERT INTO ... SELECT query.
11:59 AM Changeset [1576] by Nicklas Nordborg
Redesigned DynamicQuery? and added subclass for each type of query. …

Nov 7, 2005:

4:05 PM Changeset [1575] by Nicklas Nordborg
Added IntensityCalculatorUtil? and other classes needed by it: …
3:33 PM Changeset [1574] by Gregory Vincic
Added protocol column
2:39 PM Changeset [1573] by Gregory Vincic
Fixed old queries, default listing of scans now works
1:49 PM Changeset [1572] by Gregory Vincic
Documenting

Nov 4, 2005:

2:33 PM Changeset [1571] by Gregory Vincic
Added migration of reportermap
2:21 PM Changeset [1570] by Gregory Vincic
Initial revision of WizzzardTransfer?
2:21 PM Changeset [1569] by Gregory Vincic
Fixed quota using new byteQuota in base schemaVersion 1.2.20
1:27 PM Changeset [1568] by Johan Enell
PlateFlatFileImporter? complete
12:02 PM Changeset [1567] by Nicklas Nordborg
Updated javadoc and clean up the code Added BioAssaySet?.getPositionData
10:02 AM Changeset [1566] by Nicklas Nordborg
Extra values can now be selected by queries

Nov 3, 2005:

4:09 PM Changeset [1565] by Nicklas Nordborg
Small redesign of extra values: Added ExtraValue? class. DynamicQuery?
11:42 AM Changeset [1564] by Jari Häkkinen
Fixed typos.
11:00 AM Changeset [1563] by Gregory Vincic
Removing feature to delete files if transfer successful
10:56 AM Changeset [1562] by Nicklas Nordborg
Added PositionExtraValueBatcher? and updated dynamic batch documentation
10:50 AM Changeset [1561] by Gregory Vincic
Added schema version control and uncommented plugin related roles. …
1:48 AM Changeset [1560] by Jari Häkkinen
Added instructions on how to install from a source package, or a …
12:20 AM Changeset [1559] by Jari Häkkinen
Improved installation documentation.
Note: See TracTimeline for information about the timeline view.