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Bowtie Error "mkfifo" #29

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lesleygray opened this issue Mar 10, 2015 · 1 comment
Open

Bowtie Error "mkfifo" #29

lesleygray opened this issue Mar 10, 2015 · 1 comment

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@lesleygray
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Hi David,

I can't remember what this error means and it isn't linked to a particular strain...

[lraven@barcoo RedDog_v052]$ cat log/alignBowtiePE.3390684.stderr
(ERR): mkfifo(/tmp/26318.inpipe1) failed.
Exiting now ...

Working directory is /scratch/VR0082/lesley/RedDog_v052/

Thanks in advance!
Lesley
@d-j-e
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d-j-e commented Mar 17, 2015

This is a collision error of temp files during piped commands in a batch script.

Whilst this is not directly a RedDog issue (the problem is o/s related i.e. how slurm is handling piped commands), it is under investigation...

@d-j-e d-j-e mentioned this issue Mar 17, 2015
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@RMann24 RMann24 mentioned this issue Dec 22, 2015
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@d-j-e @lesleygray