PBS job scheduler support #8
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The function "mlv" from R package "moodest" has been modified in the latest update, now the result is no longer a list, thus the $ operator will return error.
modified version of step.2 in order to make it compatible with PBS
necessary intermediate script (PBS can only pass global varables)
necessary intermediate script
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Hello,
I created a slightly modified version of your pipeline that can support Portable Batch System (PBS) as job scheduler, instead of LSF only. The translation is not completely straightforward so we thought it could be useful to also to other users.
To keep it short, the most recent versions of PBS can't pass any parameters to the job (in contrast to LSF), thus I added some small bash script that take care of this.
Moreover, I also updated the script
04_CNV_genotype/scripts/fun_models.R, in particular where themlv()function frommodeestbecause it no longer return a list (from v2.3.2, see here).I also made some very minor corrections.
Let me know what do you think.
Simone