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fixed lsf command output parse error #988

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@xg015 xg015 commented Dec 31, 2018

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xg015 commented Jan 1, 2019

The output of bjobs -w -q is not in fixed-width column format with recommended width in table 1 at this IBM link.
Here is one example of my bjobs -w -q output in cextflow.log

JOBID USER STAT. QUEUE FROM_HOST. EXE_HOST. JOB_NAME. SUBMIT_TIME
933807. usernameabc RUN. normal. hostabcdefg compute022. nf-bam2fastq_(bam2fastq) Dec 27 08:16

so I think it is better to use tokenize() function to separate columns.

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Interesting. Thanks fo reporting that. What you are suggesting makes sense, I'll merge as soon as possible.

@pditommaso pditommaso added this to the v19.01.0 milestone Jan 8, 2019
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OK. I've merged this manually. Thanks for your contribution.

@pditommaso pditommaso closed this Jan 8, 2019
pditommaso added a commit that referenced this pull request Jan 9, 2019
This commit fixes an issue in the LSF job status parsing
when a user names (or any other column) is longer than
expected and break the tabular format.

Solved PR #988
pditommaso added a commit that referenced this pull request Jan 22, 2019
This commit fixes an issue in the LSF job status parsing
when a user names (or any other column) is longer than
expected and break the tabular format.

Solved PR #988
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