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Bug #1573

closed

CL2D has ben crashing on guppy

Added by Dmitry Lyumkis about 13 years ago. Updated about 13 years ago.

Status:
Closed
Priority:
Normal
Assignee:
Dmitry Lyumkis
Category:
-
Target version:
-
Start date:
03/02/2012
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 2.1.0
Show in known bugs:
No
Workaround:

Description

I have been consistently getting errors for the last couple days from CL2D, where the Xmipp program (NOT Appion) aborts the run. I have seen this on multiple datasets now, and I cannot run my jobs with the desired number of class averages. This doesn't seem like an Xmipp issue. Have there been any changes / upgrades to Guppy lately, or the way in which we handle jobs, e.g. MPI, memory allocation, subprocess handling within python ...?

To see the errors, check, e.g.:

/ami/data00/appion/12feb17b/align/cl2d10/xmipp.std

or:

/ami/data17/appion/09nov05a/align/cl2d18/xmipp.std

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 #1

Updated by Amber Herold about 13 years ago

Looks like a problem allocating memory. Could it have run out of available memory?

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 #2

Updated by Dmitry Lyumkis about 13 years ago

  • Status changed from New to Assigned
  • Assignee changed from Sargis Dallakyan to Dmitry Lyumkis
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 #3

Updated by Dmitry Lyumkis about 13 years ago

  • Status changed from Assigned to In Test
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 #4

Updated by Dmitry Lyumkis about 13 years ago

  • Status changed from In Test to Closed
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 #5

Updated by Amber Herold about 13 years ago

what was the fix?

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 #6

Updated by Dmitry Lyumkis about 13 years ago

alignment parameter - I used 'correntropy' instead of 'correlation' ... it must have not liked something about the data. Weird, as I have never seen this before, but it independently didn't work for two different datasets.

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