I’m new with Galaxy and so far it has been really good! However, i had a Maker job (from the tutorial Genome annotation with Maker (Galaxy Training Materials)) that had runned for roughly three days and ended in an error. This is the error log:
and the job id is: 4838ba20a6d867650e141da54dd4b087
I know I’m working with large genomes and i should expect long computing times, but what should I do? Is this a one time thing or it will happen again?
Hello Alejandro,
Typically, this error indicates an issue with the CVMFS mountpoints on the compute node, though it is a rare occurrence.
I have checked if there is problem with the node and looks good to me. In the meantime, I have restarted your job.
Best regards,
Gabriel
edit: did some more digging and found that this nodes was started between the time period that you job crashed . It’s a weird interaction between cvmfs alien cache and autofs. Autofs mounts everything on demand but because cvmfs was not yet used, autofs does not mount the cache and cvmfs breaks because the directory does not exists. Good to know tho (: