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Bug #2256

closed

Can not run Xmipp Reference Based Maximum Likelihood Alignment on emportal

Added by Julia Luciano over 11 years ago. Updated over 11 years ago.

Status:
Closed
Priority:
Normal
Assignee:
Category:
-
Target version:
-
Start date:
02/20/2013
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 2.2.0
Show in known bugs:
No
Workaround:

Description

Hi

I am using goby - emportal.scripps.edu/ to process my data.
After generating a few classes using Xmipp Maximum Likelihood Alignment (reference free) and creating templates, I tried to run Xmipp Reference Based Maximum Likelihood Alignment. It shows as a running job for a second and then quits.
I've tried a few times and the output is the same altering the number of classes. Below is the message.

Thanks a lot

I get the following messages in the mail

Message 5:
From Tue Feb 19 13:48:05 2013
Date: Tue, 19 Feb 2013 13:48:05 -0800
From: adm <>
To:
Subject: PBS JOB 23936.goby.amigroup.scripps.edu
Precedence: bulk

PBS Job Id: 23936.goby.amigroup.scripps.edu
Job Name: right_reference_alignmen3.appionsub.job
Exec host: node01/11+node01/10+node01/9+node01/8
Execution terminated
Exit_status=0
resources_used.cput=00:00:00
resources_used.mem=0kb
resources_used.vmem=0kb
resources_used.walltime=00:00:18

&
Message 6:
From Tue Feb 19 13:48:09 2013
Date: Tue, 19 Feb 2013 13:48:09 -0800
From: adm <>
To:
Subject: PBS JOB 23936.goby.amigroup.scripps.edu
Precedence: bulk

PBS Job Id: 23936.goby.amigroup.scripps.edu
Job Name: right_reference_alignmen3.appionsub.job
Exec host: node01/11+node01/10+node01/9+node01/8
An error has occurred processing your job, see below.
Post job file processing error; job 23936.goby.amigroup.scripps.edu on host node01/11+node01/10+node01/9+node01/8

Unable to copy file /var/spool/torque/spool/23936.goby.amigroup.scripps.edu.OU to :/ami/exdata/appion/12dec05b/align/right_reference_alignmen3/right_reference_alignmen3.appionsub.job.o23936
  • error from copy
    Permission denied (publickey,gssapi-with-mic,password).
    lost connection
  • end error output
    Output retained on that host in: /var/spool/torque/undelivered/23936.goby.amigroup.scripps.edu.OU
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