Timeline
Nov 11, 2005:
- 4:16 PM Ticket #1 (column names in flatfile parser) updated by
-
Status, Owner changed
- 4:06 PM Changeset [1593] by
- Default logging level set to warn
- 4:04 PM Changeset [1592] by
- Added net.sf.basedb.core logger and removed calls to Application.log …
- 3:38 PM Changeset [1591] by
- Replaced the Swing timer in Application with a jva.util.Timer running …
- 12:12 PM Changeset [1590] by
- Fixed security hole in RawFunction and changed Metadata to help with that.
- 9:56 AM Changeset [1589] by
- Batch API and Query API now uses Log4j to log debuggin information. …
- 8:28 AM Changeset [1588] by
- Fixed bugs in Install causing transactions to be left open if an item …
- 8:00 AM Changeset [1587] by
- Added backticks to filters created by …
- 7:52 AM Changeset [1586] by
- Help is now stored in table HelpTexts since there was a problem with …
Nov 10, 2005:
- 4:02 PM Changeset [1585] by
- IntensityCalculatorUtil now checks that all raw bioassays are using …
- 3:00 PM Changeset [1584] by
- 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
- We have images, of all our mutants under different conditions, that we …
- 4:00 PM Changeset [1583] by
- Updated documentation and cleaned up code.
- 12:23 PM Changeset [1582] by
- Fixed bug in TestExperiment
- 12:15 PM Changeset [1581] by
- Moved around JepUtil to it's own package (net.sf.basedb.util.jep). …
- 12:15 PM Changeset [1580] by
- Added ExperimentTransfer
Nov 8, 2005:
- 7:09 PM Changeset [1579] by
- added some @Override annotations
- 4:06 PM Changeset [1578] by
- Added JepUtil and TestJep Added Log10Expression and LnExpression …
- 1:01 PM Changeset [1577] by
- Can now create root bioassayset using INSERT INTO ... SELECT query.
- 11:59 AM Changeset [1576] by
- Redesigned DynamicQuery and added subclass for each type of query. …
Nov 7, 2005:
- 4:05 PM Changeset [1575] by
- Added IntensityCalculatorUtil and other classes needed by it: …
- 3:33 PM Changeset [1574] by
- Added protocol column
- 2:39 PM Changeset [1573] by
- Fixed old queries, default listing of scans now works
- 1:49 PM Changeset [1572] by
- Documenting
Nov 4, 2005:
- 2:33 PM Changeset [1571] by
- Added migration of reportermap
- 2:21 PM Changeset [1570] by
- Initial revision of WizzzardTransfer
- 2:21 PM Changeset [1569] by
- Fixed quota using new byteQuota in base schemaVersion 1.2.20
- 1:27 PM Changeset [1568] by
- PlateFlatFileImporter complete
- 12:02 PM Changeset [1567] by
- Updated javadoc and clean up the code Added BioAssaySet.getPositionData
- 10:02 AM Changeset [1566] by
- Extra values can now be selected by queries
Nov 3, 2005:
- 4:09 PM Changeset [1565] by
- Small redesign of extra values: Added ExtraValue class. DynamicQuery …
- 11:42 AM Changeset [1564] by
- Fixed typos.
- 11:00 AM Changeset [1563] by
- Removing feature to delete files if transfer successful
- 10:56 AM Changeset [1562] by
- Added PositionExtraValueBatcher and updated dynamic batch documentation
- 10:50 AM Changeset [1561] by
- Added schema version control and uncommented plugin related roles. …
- 1:48 AM Changeset [1560] by
- Added instructions on how to install from a source package, or a …
- 12:20 AM Changeset [1559] by
- Improved installation documentation.
Nov 2, 2005:
- 9:34 PM Changeset [1558] by
- Added info about the trac pages, also made demo servers to open in a …
- 5:56 PM Changeset [1557] by
- PlateFlatFileImporter first draft
- 4:03 PM Changeset [1556] by
- Updated some documentation for extra value batching Added …
- 3:07 PM WikiStart edited by
- (diff)
- 2:57 PM Changeset [1555] by
- Added SpotExtraValueBatcher and other needed classes for it.
- 2:57 PM Ticket #1 (column names in flatfile parser) updated by
-
Milestone changed
- 2:19 PM Changeset [1554] by
- removed all set methods from the parameter types and made the …
- 1:51 PM Ticket #1 (column names in flatfile parser) updated by
- Do columnsnumbers start at \0\ or \1\?
- 1:32 PM Ticket #1 (column names in flatfile parser) updated by
-
Description changed
Nov 1, 2005:
- 4:42 PM Changeset [1553] by
- Documenting and refactoring some DbControl variables
- 3:06 PM Ticket #1 (column names in flatfile parser) created by
- The FlatFileParser is only able to parse columnsnumbers, eg. \4\. The …
- 2:57 PM Changeset [1552] by
- Updated documentation for Dynamic API
- 1:49 PM Changeset [1551] by
- Fixed ArrayBlock transfer which now saves Features properly. …
- 10:59 AM Changeset [1550] by
- just corrected a small typo
- 9:08 AM Changeset [1549] by
- RawDataBatcher now looks for Affy featues in the AffyFeatures table …
Oct 31, 2005:
- 5:22 PM Changeset [1548] by
- Initial revision of ArrayBlockTransfer. Added includeArrayBlock = yes …
- 4:49 PM Changeset [1547] by
- Added experimental localMySQL transfer and a seperated …
- 4:46 PM Changeset [1546] by
- Initial revision of ArrayTypePlateTransfer
- 4:08 PM Changeset [1545] by
- Fixed problem with DataQuery not working when multiple raw data types …
- 3:49 PM Changeset [1544] by
- DynamicQuery can now join raw data
- 3:39 PM Changeset [1543] by
- Initial revision of ArrayType
- 1:07 PM Changeset [1542] by
- DynamiQuery now supports parameters and limits
Oct 28, 2005:
- 4:07 PM Changeset [1541] by
- Started to investigate how limits should be implemented in dynamic queries.
- 2:48 PM Changeset [1540] by
- DynamicQuery may now join the reporters table
- 1:36 PM Changeset [1539] by
- changed RawBioAssay header value from varchar(255) to text
- 9:56 AM Changeset [1538] by
- Implemented delete operation for BioAssaySet, Transformation and VirtualDb
Oct 27, 2005:
- 4:06 PM Changeset [1537] by
- Added support for deleting DataCube, DataCubeLayer and DataCubeFilter …
- 3:40 PM Changeset [1536] by
- handleHeader added
- 2:59 PM Changeset [1535] by
- added some javadoc
- 2:23 PM Changeset [1534] by
- RawDataFlatFileImporter is operational
- 1:52 PM Changeset [1533] by
- Dynamic batchers now updates the disk usage of the experiment.
- 1:19 PM Changeset [1532] by
- Quick transfer is now configurable for testing purposes. Added some …
- 11:47 AM Changeset [1531] by
- Fixed problem with closing and flushing of batchers.
- 9:54 AM Changeset [1530] by
- added a totalinsert counter to the batch system corected the reporter …
- 9:34 AM Changeset [1529] by
- Added -w option (wait for keypress before starting to delete items) to …
Oct 26, 2005:
- 3:58 PM Changeset [1528] by
- Added MappingBatcher
- 2:46 PM Changeset [1527] by
- Cleaned up and documented BioAssay, BioAssaySet, Experiment, …
- 1:09 PM Changeset [1526] by
- Seperation of RawBioAssay and it's data into two classes. Also added …
- 1:08 PM Changeset [1525] by
- Adding Image, and RawBioAssayParameters
- 1:07 PM Changeset [1524] by
- RawDataFlatFileImporter imports data
Oct 25, 2005:
- 4:51 PM Changeset [1523] by
- RawDataFlatFileImporter configures and runs TODO: handleData(..)
- 4:31 PM Changeset [1522] by
- changed the validation methods
- 4:28 PM Changeset [1521] by
- changed the batch list creationplace
- 3:50 PM Changeset [1520] by
- Added query aggregate expression. BioAssay and BioAssaySet now count …
- 1:36 PM Changeset [1519] by
- Creating basic filtered bioassaysets is now working
- 11:21 AM Changeset [1518] by
- First simple form of a query against the dynamic database is not working
- 11:12 AM Changeset [1517] by
- Using the new image file transfer in UploadFileTransfer
- 11:11 AM Changeset [1516] by
- saveItem now expects the item to already be saved to the database
- 10:40 AM Changeset [1515] by
- Adding Image file transfer
- 10:40 AM Changeset [1514] by
- Adding done() statement
- 9:42 AM Changeset [1513] by
- Adding done() statements
- 9:42 AM Changeset [1512] by
- Adding getDuration() method
- 8:48 AM Changeset [1511] by
- Added missing dependency control for protocolTransfer
- 8:48 AM Changeset [1510] by
- Using recursive run(PreparedStatement,int,int)
- 8:46 AM Changeset [1509] by
- getReporterById handles exceptions
- 8:46 AM Changeset [1508] by
- itemList is initiated within run(PreparedStatement ps, int from, int …
Oct 24, 2005:
- 4:44 PM Changeset [1507] by
- Adding done() statements
- 4:28 PM Changeset [1506] by
- Adding comments and recoding MappedPlateTransfer.
- 4:27 PM Changeset [1505] by
- createItem now returns the created Extract instead of null
- 4:03 PM Changeset [1504] by
- Added skeleton classes for DynamicQuery and DynamicResultIterator.
- 2:33 PM Changeset [1503] by
- Added SpotBatcher
- 11:53 AM Changeset [1502] by
- Linking BioAssaySet, BioAssay, DataCube and DataCubeColumn and their …
Oct 21, 2005:
- 3:01 PM Changeset [1501] by
- Start linking BioAssaySet to DataCube Added DataCubeLayer and …
- 10:36 AM Changeset [1500] by
- Postgres is now fully working.
Oct 20, 2005:
- 8:40 PM Changeset [1499] by
- Added BioAssay More implementation of Experiment, Transformation and …
- 1:36 PM Changeset [1498] by
- Documenting
- 11:42 AM Changeset [1497] by
- Added prepareStatement() method
- 11:03 AM Changeset [1496] by
- Small fixes here and there
- 11:02 AM Changeset [1495] by
- Using itemList to save items
- 11:01 AM Changeset [1494] by
- Added done() statement
- 11:01 AM Changeset [1493] by
- Removed debug log
- 11:01 AM Changeset [1492] by
- Initial revision
- 11:00 AM Changeset [1491] by
- Added getById()
- 10:59 AM Changeset [1490] by
- Using getSampleById and getAnnotationTypeById
- 8:53 AM Changeset [1489] by
- Temporary removal of fileTransfers
Oct 19, 2005:
- 10:10 PM Changeset [1488] by
- MeasuredBioMaterials are not saved anymore during …
- 10:01 PM Changeset [1487] by
- Adding done() statement
- 10:01 PM Changeset [1486] by
- Progress now indicates number of rows that have been processed even if …
- 9:55 PM Changeset [1485] by
- Initial revision
- 9:55 PM Changeset [1484] by
- Protocol associated files are now first uploaded with …
- 3:57 PM Changeset [1483] by
- Added Transformation and BioAssaySet
- 3:44 PM Changeset [1482] by
- Adding done() statement
- 3:40 PM Changeset [1481] by
- Id's are now mapped using an wrapper item before saving. After items …
- 2:38 PM Changeset [1480] by
- Implemented RawBioAssay.isUsed
- 2:12 PM Changeset [1479] by
- Test program now test putting raw bioassays in experiments.
- 12:25 PM Changeset [1478] by
- Added c3p0 connection pool and updated license information for …
- 11:33 AM Changeset [1477] by
- Added db.dynamic.catalog and db.dynamic.schema options. Added database …
Oct 18, 2005:
- 3:58 PM Changeset [1476] by
- Added DataCube Renamed Dynamic* to Virtual* Updated documentation …
- 11:43 AM Changeset [1475] by
- Implemented dynamic table creation Added PositionBatcher
Oct 17, 2005:
- 4:08 PM Changeset [1474] by
- Added DynamicTables data-, core- and test-layer class, plus supporting …
- 12:06 PM Changeset [1473] by
- Added ChildItem and made all child classes extend from this instead of …
- 9:53 AM Changeset [1472] by
- Added ClassUtil
Oct 16, 2005:
- 2:47 AM Changeset [1471] by
- Changed repository location.
Oct 14, 2005:
- 2:56 PM Changeset [1470] by
- Added some data layer classes for experiments and analysis Added core …
- 11:34 AM Changeset [1469] by
- Removed unneeded import from FileData
- 11:23 AM Changeset [1468] by
- Fixed mysterious bug that caused IE to select the wrong property in …
- 11:08 AM Changeset [1467] by
- Another fix for MySQL/Postgres compatibility
- 11:07 AM Changeset [1466] by
- Added Postgres driver and fixed some of the bugs having to do with …
- 10:53 AM Changeset [1465] by
- createItem(ResultSet) is no longer abstract
- 10:19 AM Changeset [1464] by
- Rewrote createItem and added createImage() method
- 10:18 AM Changeset [1463] by
- Adding runUnBatched() method
- 10:18 AM Changeset [1462] by
- Fixing bug for empty descriptions
Oct 13, 2005:
- 8:21 PM Changeset [1461] by
- Updated development status
- 4:33 PM Changeset [1460] by
- Assorted changes including itemlist.js
- 3:31 PM Changeset [1459] by
- Using new progress and MappedPlateTransfer now uses one progress for …
- 2:36 PM Changeset [1458] by
- Using threaded progress report
- 2:36 PM Changeset [1457] by
- Removing old progress methods dot, firstdot and lastdot
- 2:33 PM Changeset [1456] by
- Initial revision of ProgressThread.
- 2:31 PM Changeset [1455] by
- Updated to Hibernate 3.1 and changed DataQuery to use stateless …
- 11:18 AM Changeset [1454] by
- Making class public
- 11:18 AM Changeset [1453] by
- Making it possible to dump resultset on error
- 11:17 AM Changeset [1452] by
- Adding logging
- 11:16 AM Changeset [1451] by
- Fixing permission denied problem for existing files
- 11:16 AM Changeset [1450] by
- Removing unused methods
- 11:15 AM Changeset [1449] by
- Adding log method which dumps a ResultSet
- 11:14 AM Changeset [1448] by
- Making class public
Oct 12, 2005:
- 2:50 PM Changeset [1447] by
- Ok, here is the Batcher again
- 2:49 PM Changeset [1446] by
- Added Batcher interface changed DbControl to use it instead of the …
- 2:39 PM Changeset [1445] by
- FileUtil.getDirectoryTree now loads shared/others directories as well
- 12:03 PM Changeset [1444] by
- Fixed bug in AbstractEntityQuery that ignored Query.setFirstResult …
- 11:59 AM Changeset [1443] by
- Added QueryRuntimeFilterManager to make it easier to enable/disable …
- 11:55 AM Changeset [1442] by
- Added generics parameter to FeatureBatcher.
- 10:41 AM Changeset [1441] by
- Query API documentation and it's javadoc is now finished
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