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Bug #2575

closed

Template picking job hangs in Garibaldi due to FindEM hanging

Added by Saikat Chowdhury about 11 years ago. Updated almost 7 years ago.

Status:
Closed
Priority:
Normal
Category:
-
Target version:
-
Start date:
11/07/2013
Due date:
% Done:

0%

Estimated time:
Affected Version:
Appion/Leginon 3.0.0
Show in known bugs:
No
Workaround:

Description

I have been trying to run template picker since last weekend on session# 12587(13oct29b) and 12628(13nov05o). The name of the job file is "template.job" and the directories in garibaldi are :"/gpfs/home/saikat/xdynactin_tilt" and "/gpfs/home/saikat/xdynactin_tilt/tilt_pair".
Sometimes the job crashes stating that findem.exe has crashed. If I resubmit the job then it runs for some more micrographs and gets stuck. Neither does the job crash, nor does it give any error, but seems to be stuck at a micrograph for hours. If I kill the job and resubmit it, it will proceed for some more micrographs and again hang. There are no definite number of micrographs the job proceeds for nor is there a specific step at which the job hangs.
I waited for myami to be upgraded and then resubmitted the job today and I still have the same issue.


Related issues 2 (1 open1 closed)

Related to Appion - Bug #2504: template picker stalls for unknown reasonNew09/03/2013

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Related to Appion - Bug #2923: tiltaligner bugClosedSargis Dallakyan09/08/2014

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