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Diff Rev Age Author Log Message
(edit) @1575   18 years Nicklas Nordborg Added IntensityCalculatorUtil? and other classes needed by it: …
(edit) @1574   18 years Gregory Vincic Added protocol column
(edit) @1573   18 years Gregory Vincic Fixed old queries, default listing of scans now works
(edit) @1572   18 years Gregory Vincic Documenting
(edit) @1571   18 years Gregory Vincic Added migration of reportermap
(edit) @1570   18 years Gregory Vincic Initial revision of WizzzardTransfer?
(edit) @1569   18 years Gregory Vincic Fixed quota using new byteQuota in base schemaVersion 1.2.20
(edit) @1568   18 years Johan Enell PlateFlatFileImporter? complete
(edit) @1567   18 years Nicklas Nordborg Updated javadoc and clean up the code Added BioAssaySet?.getPositionData
(edit) @1566   18 years Nicklas Nordborg Extra values can now be selected by queries
(edit) @1565   18 years Nicklas Nordborg Small redesign of extra values: Added ExtraValue? class. DynamicQuery?
(edit) @1564   18 years Jari Häkkinen Fixed typos.
(edit) @1563   18 years Gregory Vincic Removing feature to delete files if transfer successful
(edit) @1562   18 years Nicklas Nordborg Added PositionExtraValueBatcher? and updated dynamic batch documentation
(edit) @1561   18 years Gregory Vincic Added schema version control and uncommented plugin related roles. …
(edit) @1560   18 years Jari Häkkinen Added instructions on how to install from a source package, or a …
(edit) @1559   18 years Jari Häkkinen Improved installation documentation.
(edit) @1558   18 years Jari Häkkinen Added info about the trac pages, also made demo servers to open in a …
(edit) @1557   18 years Johan Enell PlateFlatFileImporter? first draft
(edit) @1556   18 years Nicklas Nordborg Updated some documentation for extra value batching Added …
(edit) @1555   18 years Nicklas Nordborg Added SpotExtraValueBatcher? and other needed classes for it.
(edit) @1554   18 years Johan Enell removed all set methods from the parameter types and made the …
(edit) @1553   18 years Gregory Vincic Documenting and refactoring some DbControl? variables
(edit) @1552   18 years Nicklas Nordborg Updated documentation for Dynamic API
(edit) @1551   18 years Gregory Vincic Fixed ArrayBlock? transfer which now saves Features properly. …
(edit) @1550   18 years Johan Enell just corrected a small typo
(edit) @1549   18 years Nicklas Nordborg RawDataBatcher? now looks for Affy featues in the AffyFeatures? table …
(edit) @1548   18 years Gregory Vincic Initial revision of ArrayBlockTransfer?. Added includeArrayBlock = yes …
(edit) @1547   18 years Gregory Vincic Added experimental localMySQL transfer and a seperated …
(edit) @1546   18 years Gregory Vincic Initial revision of ArrayTypePlateTransfer?
(edit) @1545   18 years Nicklas Nordborg Fixed problem with DataQuery? not working when multiple raw data types …
(edit) @1544   18 years Nicklas Nordborg DynamicQuery? can now join raw data
(edit) @1543   18 years Gregory Vincic Initial revision of ArrayType?
(edit) @1542   18 years Nicklas Nordborg DynamiQuery? now supports parameters and limits
(edit) @1541   18 years Nicklas Nordborg Started to investigate how limits should be implemented in dynamic queries.
(edit) @1540   18 years Nicklas Nordborg DynamicQuery? may now join the reporters table
(edit) @1539   18 years Johan Enell changed RawBioAssay? header value from varchar(255) to text
(edit) @1538   18 years Nicklas Nordborg Implemented delete operation for BioAssaySet?, Transformation and VirtualDb?
(edit) @1537   18 years Nicklas Nordborg Added support for deleting DataCube?, DataCubeLayer? and DataCubeFilter?
(edit) @1536   18 years Johan Enell handleHeader added
(edit) @1535   18 years Johan Enell added some javadoc
(edit) @1534   18 years Johan Enell RawDataFlatFileImporter? is operational
(edit) @1533   18 years Nicklas Nordborg Dynamic batchers now updates the disk usage of the experiment.
(edit) @1532   18 years Gregory Vincic Quick transfer is now configurable for testing purposes. Added some …
(edit) @1531   18 years Nicklas Nordborg Fixed problem with closing and flushing of batchers.
(edit) @1530   18 years Johan Enell added a totalinsert counter to the batch system corected the reporter …
(edit) @1529   18 years Nicklas Nordborg Added -w option (wait for keypress before starting to delete items) to …
(edit) @1528   18 years Nicklas Nordborg Added MappingBatcher?
(edit) @1527   18 years Nicklas Nordborg Cleaned up and documented BioAssay?, BioAssaySet?, Experiment, …
(edit) @1526   18 years Gregory Vincic Seperation of RawBioAssay? and it's data into two classes. Also added …
(edit) @1525   18 years Gregory Vincic Adding Image, and RawBioAssayParameters?
(edit) @1524   18 years Johan Enell RawDataFlatFileImporter? imports data
(edit) @1523   18 years Johan Enell RawDataFlatFileImporter? configures and runs TODO: handleData(..)
(edit) @1522   18 years Johan Enell changed the validation methods
(edit) @1521   18 years Johan Enell changed the batch list creationplace
(edit) @1520   18 years Nicklas Nordborg Added query aggregate expression. BioAssay? and BioAssaySet? now count …
(edit) @1519   18 years Nicklas Nordborg Creating basic filtered bioassaysets is now working
(edit) @1518   18 years Nicklas Nordborg First simple form of a query against the dynamic database is not working
(edit) @1517   18 years Gregory Vincic Using the new image file transfer in UploadFileTransfer?
(edit) @1516   18 years Gregory Vincic saveItem now expects the item to already be saved to the database
(edit) @1515   18 years Gregory Vincic Adding Image file transfer
(edit) @1514   18 years Gregory Vincic Adding done() statement
(edit) @1513   18 years Gregory Vincic Adding done() statements
(edit) @1512   18 years Gregory Vincic Adding getDuration() method
(edit) @1511   18 years Gregory Vincic Added missing dependency control for protocolTransfer
(edit) @1510   18 years Gregory Vincic Using recursive run(PreparedStatement?,int,int)
(edit) @1509   18 years Gregory Vincic getReporterById handles exceptions
(edit) @1508   18 years Gregory Vincic itemList is initiated within run(PreparedStatement? ps, int from, int …
(edit) @1507   18 years Gregory Vincic Adding done() statements
(edit) @1506   18 years Gregory Vincic Adding comments and recoding MappedPlateTransfer?.
(edit) @1505   18 years Gregory Vincic createItem now returns the created Extract instead of null
(edit) @1504   18 years Nicklas Nordborg Added skeleton classes for DynamicQuery? and DynamicResultIterator?.
(edit) @1503   18 years Nicklas Nordborg Added SpotBatcher?
(edit) @1502   18 years Nicklas Nordborg Linking BioAssaySet?, BioAssay?, DataCube? and DataCubeColumn? and their …
(edit) @1501   18 years Nicklas Nordborg Start linking BioAssaySet? to DataCube? Added DataCubeLayer? and …
(edit) @1500   18 years Nicklas Nordborg Postgres is now fully working.
(edit) @1499   18 years Nicklas Nordborg Added BioAssay? More implementation of Experiment, Transformation and …
(edit) @1498   18 years Gregory Vincic Documenting
(edit) @1497   18 years Gregory Vincic Added prepareStatement() method
(edit) @1496   18 years Gregory Vincic Small fixes here and there
(edit) @1495   18 years Gregory Vincic Using itemList to save items
(edit) @1494   18 years Gregory Vincic Added done() statement
(edit) @1493   18 years Gregory Vincic Removed debug log
(edit) @1492   18 years Gregory Vincic Initial revision
(edit) @1491   18 years Gregory Vincic Added getById()
(edit) @1490   18 years Gregory Vincic Using getSampleById and getAnnotationTypeById
(edit) @1489   18 years Gregory Vincic Temporary removal of fileTransfers
(edit) @1488   18 years Gregory Vincic MeasuredBioMaterials? are not saved anymore during …
(edit) @1487   18 years Gregory Vincic Adding done() statement
(edit) @1486   18 years Gregory Vincic Progress now indicates number of rows that have been processed even if …
(edit) @1485   18 years Gregory Vincic Initial revision
(edit) @1484   18 years Gregory Vincic Protocol associated files are now first uploaded with …
(edit) @1483   18 years Nicklas Nordborg Added Transformation and BioAssaySet?
(edit) @1482   18 years Gregory Vincic Adding done() statement
(edit) @1481   18 years Gregory Vincic Id's are now mapped using an wrapper item before saving. After items …
(edit) @1480   18 years Nicklas Nordborg Implemented RawBioAssay?.isUsed
(edit) @1479   18 years Nicklas Nordborg Test program now test putting raw bioassays in experiments.
(edit) @1478   18 years Nicklas Nordborg Added c3p0 connection pool and updated license information for …
(edit) @1477   18 years Nicklas Nordborg Added db.dynamic.catalog and db.dynamic.schema options. Added database …
(edit) @1476   18 years Nicklas Nordborg Added DataCube? Renamed Dynamic* to Virtual* Updated documentation …
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