

@3115

15 years 
Jari Häkkinen 
Added text on how to stop unintentional migration.



@2992

15 years 
Johan Enell 
Merged log:branches/2.1#2846:2990 trunk.



@2981

15 years 
Nicklas Nordborg 
Fixes #447: Fix javadoc warnings



@2959

15 years 
Nicklas Nordborg 
References #412: Fix build.xml to make it more developerfriendly



@2870

16 years 
Martin Svensson 
References #397 Method may fail to close database resource



@2866

16 years 
Martin Svensson 
References #397 Null pointer dereference



@2863

16 years 
Martin Svensson 
Fixed bug: Nullcheck of value previously dereferenced



@2707

16 years 
Jari Häkkinen 
Spell checked.



@2697

16 years 
Nicklas Nordborg 
References #368: Migration should migrate plugin settings for BASE 1 …



@2693

16 years 
Nicklas Nordborg 
Fixes #368: Migration should migrate plugin settings for BASE 1 plugins



@2690

16 years 
Johan Enell 
Merged log:branches/2.0#2618:2688 from branch 2.0 to trunk.



@2614

16 years 
Nicklas Nordborg 
References #332: Base 1 ID lookup is unstable
Should fix the original …



@2581

16 years 
Nicklas Nordborg 
Replaced fixed array with map. Use printStackTrace() method to always …



@2564

16 years 
Nicklas Nordborg 
Added Application.start(boolean) method that allows an application to …



@2395

16 years 
Nicklas Nordborg 
Fixed compilation error



@2318

16 years 
Nicklas Nordborg 
Set row and column coordinate of a feature



@2314

16 years 
Nicklas Nordborg 
Fixes #260: Remove AffyFeatures? table
Also removed a lot of unused …



@2306

16 years 
Jari Häkkinen 
Fixed subversion proterties.



@2304

16 years 
Jari Häkkinen 
Changed copyright statement.



@2302

16 years 
Nicklas Nordborg 
Fixed Javadoc warnings



@2203

16 years 
Nicklas Nordborg 
Fixes #1: column names in flatfile parser
Also changed migration so it …



@2169

16 years 
Nicklas Nordborg 
Fixes #148: Should read permission in BASE 1 be migrated as read/use …



@2027

16 years 
Gregory Vincic 
Fixed column order in the configuration view



@2023

16 years 
Gregory Vincic 
Fixed ticket #75 removing warnings and unused code



@2000

16 years 
Gregory Vincic 
Fixed ticket #77 and started working on removing unused code (ticket …



@1992

16 years 
Gregory Vincic 
Added server flag which should fix the following error
Exception in …



@1982

16 years 
Gregory Vincic 
Fixing migration bug where users where mapped incorrectly



@1979

16 years 
Nicklas Nordborg 
Fixed ticket #100: IllegalArgumentException? occurred calling getter of …



@1967

16 years 
Gregory Vincic 
Organizing imports



@1958

16 years 
Gregory Vincic 
Fixed ticket #63



@1916

16 years 
Gregory Vincic 
Removing unused imports



@1900

16 years 
Gregory Vincic 
Fixing javadoc warnings



@1830

16 years 
Gregory Vincic 
Added LIMIT values to user query



@1797

16 years 
Gregory Vincic 
Fixed bug where roles where not assigned due to a closed DbControl?



@1774

16 years 
Gregory Vincic 
Cleaned up superfluous import statements and unused variables.



@1745

16 years 
Gregory Vincic 
Cleaned up comments



@1734

16 years 
Jari Häkkinen 
Fixed many warnings from javadoc. Added TODO comments all over with …



@1712

16 years 
Gregory Vincic 
Experiments whoose rawBioAssay does not have any rawData connected to …



@1711

16 years 
Gregory Vincic 
Removing log statement from prepareSTatementFromFile procedure



@1710

16 years 
Gregory Vincic 
Fixed bug where mean is lower than zero



@1707

16 years 
Gregory Vincic 
Fixed conflicts in RawBioAssayDataTransfer?



@1706

16 years 
Gregory Vincic 
Added ArrayDesign? check in RawBioAssayDataTransfer?



@1704

16 years 
Gregory Vincic 
Added ArrayDesign? check in RawBioAssayDataTransfer?



@1698

16 years 
Nicklas Nordborg 
Fixed compilation error



@1695

16 years 
Gregory Vincic 
Renamed selectProtocolFiless to selectProtocolFiles



@1694

16 years 
Gregory Vincic 
Clean up



@1693

16 years 
Gregory Vincic 
Preparing statements at startup. Users and Groups now store their …



@1691

16 years 
Gregory Vincic 
Closing ResultSets? in Transfer. Fixing invalid date exception in …



@1689

16 years 
Gregory Vincic 
Catching SQLExceptions for invalid dates



@1687

16 years 
Gregory Vincic 
Fixed date parsing for expiration date



@1686

16 years 
Gregory Vincic 
Fixed date parsing for expiration date



@1685

16 years 
Gregory Vincic 
Fixed missing description for RawBioAssays?. Renamed selectRawBioAssay …



@1684

16 years 
Gregory Vincic 
Initial revision



@1683

16 years 
Gregory Vincic 
Major rewrite. All SQL statements are now defined in a seperate file. …



@1679

16 years 
Nicklas Nordborg 
Added some raw data types and hardware / software in install



@1668

16 years 
Gregory Vincic 
Changed time calculation, which should eliminate the negative numbering.



@1665

16 years 
Gregory Vincic 
Removed some logging



@1661

16 years 
Nicklas Nordborg 
Added support for password encryption when loggin in



@1651

16 years 
Gregory Vincic 
Removed some logging



@1648

17 years 
Gregory Vincic 
Fixed bug with unavailable ArraySlides? and removed some logging



@1645

17 years 
Gregory Vincic 
Setting different SELECT limit if QUICK_TRANSFER = yes



@1644

17 years 
Gregory Vincic 
Removed calls to depraceted methods and fixed invalid use of null in …



@1643

17 years 
Gregory Vincic 
Catching NumberFormatException?



@1642

17 years 
Gregory Vincic 
Removed some logging



@1641

17 years 
Gregory Vincic 
Annotations generating InvalidDataException? are not migrated



@1637

17 years 
Gregory Vincic 
Fixed bug with equal filenames and removed some logging



@1633

17 years 
Gregory Vincic 
Logs migration ending



@1631

17 years 
Nicklas Nordborg 
Modified SessionControl?.impersonateLogin() to create a new …



@1630

17 years 
Gregory Vincic 
Fixed logging



@1625

17 years 
Gregory Vincic 
Changed error output to info



@1624

17 years 
Nicklas Nordborg 
Added Log4j logger to migration since it didn't compile now that the …



@1580

17 years 
Gregory Vincic 
Added ExperimentTransfer?



@1572

17 years 
Gregory Vincic 
Documenting



@1571

17 years 
Gregory Vincic 
Added migration of reportermap



@1570

17 years 
Gregory Vincic 
Initial revision of WizzzardTransfer?



@1569

17 years 
Gregory Vincic 
Fixed quota using new byteQuota in base schemaVersion 1.2.20



@1563

17 years 
Gregory Vincic 
Removing feature to delete files if transfer successful



@1561

17 years 
Gregory Vincic 
Added schema version control and uncommented plugin related roles. …



@1553

17 years 
Gregory Vincic 
Documenting and refactoring some DbControl? variables



@1551

17 years 
Gregory Vincic 
Fixed ArrayBlock? transfer which now saves Features properly. …



@1548

17 years 
Gregory Vincic 
Initial revision of ArrayBlockTransfer?. Added includeArrayBlock = yes …



@1547

17 years 
Gregory Vincic 
Added experimental localMySQL transfer and a seperated …



@1546

17 years 
Gregory Vincic 
Initial revision of ArrayTypePlateTransfer?



@1543

17 years 
Gregory Vincic 
Initial revision of ArrayType?



@1532

17 years 
Gregory Vincic 
Quick transfer is now configurable for testing purposes. Added some …



@1526

17 years 
Gregory Vincic 
Seperation of RawBioAssay? and it's data into two classes. Also added …



@1525

17 years 
Gregory Vincic 
Adding Image, and RawBioAssayParameters?



@1517

17 years 
Gregory Vincic 
Using the new image file transfer in UploadFileTransfer?



@1516

17 years 
Gregory Vincic 
saveItem now expects the item to already be saved to the database



@1515

17 years 
Gregory Vincic 
Adding Image file transfer



@1514

17 years 
Gregory Vincic 
Adding done() statement



@1513

17 years 
Gregory Vincic 
Adding done() statements



@1512

17 years 
Gregory Vincic 
Adding getDuration() method



@1511

17 years 
Gregory Vincic 
Added missing dependency control for protocolTransfer



@1510

17 years 
Gregory Vincic 
Using recursive run(PreparedStatement?,int,int)



@1509

17 years 
Gregory Vincic 
getReporterById handles exceptions



@1508

17 years 
Gregory Vincic 
itemList is initiated within run(PreparedStatement? ps, int from, int …



@1507

17 years 
Gregory Vincic 
Adding done() statements



@1506

17 years 
Gregory Vincic 
Adding comments and recoding MappedPlateTransfer?.



@1505

17 years 
Gregory Vincic 
createItem now returns the created Extract instead of null


