Hi,I have just started looking at Taverna (2.2.0 on Linux/Java 6 (I've tried both openjdk and sun)). The first things I'd like to get running are invocation of jobs via ssh, but I've failed so far.
I've managed to get a call to a test script on my local machine to work, but not on a remote machine via ssh. I've looked in the docs and searched the mailing list archives but to no avail. I have a set of questions and observations:
1. I can do a test connect from "Configure UseCase invocation/Configure ssh invocation/Add a new..." dialog.
2. Running a workflow with the ssh worker from 1 doesn't work, though it appears that the ssh connection works (at least I get no error dialog nor error message in the log). I click run and then it runs (at least for an hour) until I cancel the job. The connection is not recorded in the taverna-2.2.0.log. See attached log file.
3a. Public key authentication doesn't work. I type in the passphrase to the private key and immediately get a new dialog box prompting me for the passphrase.
3b. The dialog box prompting me for the passphrase to the private key shows what I'm typing in clear text, which doesn't seem right to me. I also found that passwords are stored and viewable as clear text in the credentials manager.
What's the best way of debugging my connections? /Daniel -- Daniel Lundin, Postdoc SciLifeLab, School of biotechnology, KTH Royal institute of technology, Stockholm, Sweden Postal address: Box 1031 171 21 Solna Sweden Visiting address: Tomtebodavägen 23 A Mobile: +46 (0)708 123 922 Email: [email protected]
INFO 2011-05-13 12:21:22,672 (net.sf.taverna.t2.workbench.helper.HelpCollator:168) - Attempting to register net.sf.taverna.t2.workbench.ui.impl.Workbench-dialog INFO 2011-05-13 12:21:22,672 (net.sf.taverna.t2.workbench.helper.HelpCollator:181) - Refused to register component as net.sf.taverna.t2.workbench.ui.impl.workbench-dialog - not in map INFO 2011-05-13 12:21:23,231 (net.sf.taverna.t2.workbench.helper.HelpCollator:168) - Attempting to register net.sf.taverna.t2.workbench.ui.impl.Workbench-dialog INFO 2011-05-13 12:21:23,231 (net.sf.taverna.t2.workbench.helper.HelpCollator:181) - Refused to register component as net.sf.taverna.t2.workbench.ui.impl.workbench-dialog - not in map INFO 2011-05-13 12:21:23,257 (net.sf.taverna.t2.reference.ui.CopyWorkflowSwingWorker:49) - CopyWorkflowSwingWorker: copying of the workflow started. INFO 2011-05-13 12:21:23,302 (net.sf.taverna.t2.reference.ui.CopyWorkflowSwingWorker:51) - CopyWorkflowSwingWorker: copying of the workflow finished. INFO 2011-05-13 12:21:26,766 (net.sf.taverna.t2.workbench.helper.HelpCollator:168) - Attempting to register Enter master password INFO 2011-05-13 12:21:26,768 (net.sf.taverna.t2.workbench.helper.HelpCollator:181) - Refused to register component as enter-master-password - not in map INFO 2011-05-13 12:22:33,140 (net.sf.taverna.t2.facade.impl.WorkflowInstanceFacadeImpl:530) - Cancelled workflow runId=ae2aeebf-864e-4062-95c4-d2d1c25c0c05 processId=facade0 INFO 2011-05-13 12:22:33,153 (net.sf.taverna.t2.provenance.api.ProvenanceAccess:185) - Provenance being captured using: derby WARN 2011-05-13 12:22:35,900 (net.sf.taverna.t2.provenance.lineageservice.WorkflowDataProcessor:215) - No workflow port data for /o:stdout WARN 2011-05-13 12:22:35,900 (net.sf.taverna.t2.provenance.lineageservice.WorkflowDataProcessor:215) - No workflow port data for /o:stderr
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