Hi Bin, Try creating a new user with Administrator permissions and set an actual (fairly generous) quota value for that user. It looks to me like the import is failing because user root has not got an actual quota value allocated.
I have to warn you though the batch importer is currently not getting maintained at all, and hasn't been for some time. The reason for this is that we have been focusing on getting the Tab2MageImporter to work instead, which does a much better job at getting data into BASE (it imports a whole experiment complete with metadata and raw data on the basis of information from a spreadsheet). So if you are having any more trouble with the batch importer I would probably recommend you switch to the Tab2MageImporter instead. Cheers Micha ================================== Dr Micha M Bayer Bioinformatics Specialist Genetics Programme The Scottish Crop Research Institute Invergowrie Dundee DD2 5DA Scotland, UK Telephone +44(0)1382 562731 ext. 2309 Fax +44(0)1382 562426 http://www.scri.ac.uk/staff/michabayer ================================== > -----Original Message----- > From: [EMAIL PROTECTED] [mailto:basedb-users- > [EMAIL PROTECTED] On Behalf Of B. Liu > Sent: 11 June 2008 15:26 > To: basedb-users@lists.sourceforge.net > Subject: [base] batchimporter plugin problem > > Good afternoon, > > I am using base 2.7 and batchimporter plugin to import 51 Affy SNP 6 > sample data (zip file size is 1.4 GB) into the system, and got the > message saying: Plugin failed: java.lang.NegativeArraySizeException. > > Apache logs shows the following: > > experiment: Experiment[id=1; name=Genome-Wide Human SNP Array 6.0 > Sample Data] > file selected: hapmapdataA01.zip > zipFile is located in dir Directory[id=1; name=root] > new subDir = hapmapdataA01110608_131638 > quotaValue for user User[id=1; name=Root] = -1 > currentDiskUsage = 1544304696 > remainingSpace = -1544304697 > zipFileSize = 3946432783 > unpacking > numUnpackedFiles = 51 > BatchDataImport importData > dir = hapmapdataA01110608_131638 > rawDataType = Affymetrix > java.lang.NegativeArraySizeException > at > sbrn.base.BatchDataImport.importData(BatchDataImport.java:271) > at sbrn.base.BatchDataImporter.run(BatchDataImporter.java:137) > at > net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest > .java:108) > at > net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java > :505) > at java.lang.Thread.run(Thread.java:619) > > Any clue? > > Thanks > > Bin > > > > ----------------------------------------------------------------------- > -- > Check out the new SourceForge.net Marketplace. > It's the best place to buy or sell services for > just about anything Open Source. > http://sourceforge.net/services/buy/index.php > _______________________________________________ > The BASE general discussion mailing list > basedb-users@lists.sourceforge.net > unsubscribe: send a mail with subject "unsubscribe" to > [EMAIL PROTECTED] _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ _ SCRI, Invergowrie, Dundee, DD2 5DA. The Scottish Crop Research Institute is a charitable company limited by guarantee. Registered in Scotland No: SC 29367. Recognised by the Inland Revenue as a Scottish Charity No: SC 006662. DISCLAIMER: This email is from the Scottish Crop Research Institute, but the views expressed by the sender are not necessarily the views of SCRI and its subsidiaries. This email and any files transmitted with it are confidential to the intended recipient at the e-mail address to which it has been addressed. It may not be disclosed or used by any other than that addressee. If you are not the intended recipient you are requested to preserve this confidentiality and you must not use, disclose, copy, print or rely on this e-mail in any way. Please notify [EMAIL PROTECTED] quoting the name of the sender and delete the email from your system. Although SCRI has taken reasonable precautions to ensure no viruses are present in this email, neither the Institute nor the sender accepts any responsibility for any viruses, and it is your responsibility to scan the email and the attachments (if any). ------------------------------------------------------------------------- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://sourceforge.net/services/buy/index.php _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
