Bowtie Error "mkfifo" - Githubissues

katholt / RedDog

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Open lesleygray opened 9 years ago

lesleygray commented 9 years ago

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 commented 9 years ago

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...