Yes, that is 'true' by default. (Wipes brow, glad I didn't miss that one!)
When I set the "item not found" response to "fail" I get the following stack trace: net.sf.basedb.core.BaseException: Item not found: Sample[name=gcfk_anotis_carcass_g1] on line 2: gcfk_anotis_carca... at net.sf.basedb.plugins.AbstractFlatFileImporter.doImport(AbstractFlatFileImporter.java:626) at net.sf.basedb.plugins.AbstractFlatFileImporter.run(AbstractFlatFileImporter.java:441) at net.sf.basedb.core.PluginExecutionRequest.invoke(PluginExecutionRequest.java:108) at net.sf.basedb.core.InternalJobQueue$JobRunner.run(InternalJobQueue.java:487) at java.lang.Thread.run(Thread.java:619) Caused by: net.sf.basedb.core.ItemNotFoundException: Item not found: Sample[name=gcfk_anotis_carcass_g1] at net.sf.basedb.plugins.AnnotationFlatFileImporter.handleData(AnnotationFlatFileImporter.java:705) at net.sf.basedb.plugins.AbstractFlatFileImporter.doImport(AbstractFlatFileImporter.java:597) ... 4 more and, yes, the item really is there. If I run the same plugin on the same text file while impersonating the item's owner it works fine. (I did this for around 5 users as a workaround. Note/tip: if you need to provide a "shared" directory for all users to read it has to be under /home/ and of course have Everyone read/use permissions.) I'm running 2.6.2pre (==2.6.1) on a pretty standard system. cheers, Bob Nicklas Nordborg writes: > Bob MacCallum wrote: > > Hi all, > > > > I'm having difficulty getting my head around plugin permissions or perhaps > > there's a bug here. > > > > I want to annotate samples or biosources while logged in as Administrator. > > Some of the items belong to Administrator and these get annotated OK, > > while the items belonging to other users are not annotated. There's > > a warning like this in the Job output: > > > > Done: 12 item(s) annotated with 12 annotation(s) (12 was replaced); 139 > > row(s) skipped because no item was found > > > > any ideas, other than to take ownership of these items? > > Have you selected the "Owned by others" option in the last step of of > importer wizard? > > /Nicklas > > ------------------------------------------------------------------------- > Check out the new SourceForge.net Marketplace. > It's the best place to buy or sell services for > just about anything Open Source. > http://ad.doubleclick.net/clk;164216239;13503038;w?http://sf.net/marketplace > _______________________________________________ > The BASE general discussion mailing list > basedb-users@lists.sourceforge.net > unsubscribe: send a mail with subject "unsubscribe" to > [EMAIL PROTECTED] -- Bob MacCallum | VectorBase Developer | Kafatos/Christophides Groups | Division of Cell and Molecular Biology | Imperial College London | Phone +442075941945 | Email [EMAIL PROTECTED] ------------------------------------------------------------------------- Check out the new SourceForge.net Marketplace. It's the best place to buy or sell services for just about anything Open Source. http://ad.doubleclick.net/clk;164216239;13503038;w?http://sf.net/marketplace _______________________________________________ The BASE general discussion mailing list basedb-users@lists.sourceforge.net unsubscribe: send a mail with subject "unsubscribe" to [EMAIL PROTECTED]
