I am trying out the Tab2Mage importer. When starting it from the "import" button in an experiment it quickly returns with an error. I am running it as root on base2.4.3 having added tab2mage importer and Annotation Type and CV Loader as plug-ins. Input file is the genepix example file found at http://www.ebi.ac.uk/~oyeniran/pages/download.html. This is output from the plugin window:
Name Run plugin: Tab2Mage Importer Description Priority 4 (1 = highest, 10 = lowest) Status Error: IMPORT FAILS: The directory containing the unzipped files could not be found. You may NOT have sufficient Disk Space Percent complete 100% Created 2007-10-17 13:48:51 Started 2007-10-17 13:49:37 Ended 2007-10-17 13:49:37 Server mr16008.ad.medicalresearch.no User Root Experiment - none - Plugin Tab2Mage Importer Configuration - none - java.lang.Throwable at uk.ac.ebi.nugo.plugins.Tab2MageImporter.run(Tab2MageImporter.java:286) at net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java :89) at net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java:421) at java.lang.Thread.run(Thread.java:595) Job parameters Email Server Name Experiment New experiment Zip File /home/tab2mageimporterfiles/gen2.zip Tab2Mage FileName with Extension tab2mage.txt It seems to be problems with the unzipping. When looking for the files in the BASE filesystem I cant find them so they are probably not unzipped as the error message may indicate. But running as root I should have permissions and space. One strange thing I can see is that the plug-in reports the Experiment as "- none -" even though a named experiment is given as input parameter. In my efforts to solve the problem I wanted to inspect the code but was unable to find the java files referred in the stack trace. Where can I find them? In the jar file I found only class files. I downloaded the whole Nutribase-2.0.2-src.zip, but was unable to unpack the file properly. Are the source files for the importer inside and if so how do I unpack the zip file? Best regards Vegard Nygaard Software Engineer Department of Tumor Biology (Montebello) Rikshospitalet-Radiumhospitalet Medical Center 0310 Oslo Bioinformatics user support (NMC) Phone 0047 22935590 ------------------------------------------------------------------------- This SF.net email is sponsored by: Splunk Inc. Still grepping through log files to find problems? Stop. Now Search log events and configuration files using AJAX and a browser. Download your FREE copy of Splunk now >> http://get.splunk.com/ _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
