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-bash: inspectXeption: line 0: syntax error near unexpected token `;' #31
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Can you make a TAR packing contents of this directory Please upload the following items. This will be very helpful for debugging.
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1, See attached tar-ball 2, The full
3, The
4, See attached tar-ball: for.jin.lee.tar.gz 5, See attached tar-ball: Thanks. Best |
Pipeline failed at the first task
Can you run the following command and see what happens? This is a raw command line used by the pipeline to qsub this bash script
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Hi Jin, Ok. This what I did:
BTW, the contents of the file
Thanks. Best |
Hi Jin, Seems the problem is in the directive
I changed the file
and then performed this:
and in 1-2 minutes it is finished:
the file Thanks. Best |
Hi Jin, I guess I know where the problem is.
and your I commented these 3 functions, and it is all ok now. Thanks. Best |
problem solved:
Thanks. Best |
Hi Jin,
Apart from my earlier question (#30) how to deal the issue that backend version ran for 24hrs before it crashed because of excessive job submission, I also found that even before that there are errors in the
call-read-genome-tsv
step:The first
stderr
file above has non-zero size.Below is the contents of the first
stderr
file above:This
stderr
was not found in my successfully finished run of your pipeline for individual bio-reps on local/non-backend CPUs.What might be wrong? Is it a bug too?
Thanks.
Best
Chan
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