[mira_talk] Re: MIRA in bash
- From: Robert Bruccoleri <bruc@xxxxxxxxxxxxxxxxxxxxx>
- To: mira_talk@xxxxxxxxxxxxx
- Date: Fri, 09 Jan 2015 09:50:50 -0500
Dear Felipe,
It's doubtful that Mira can mess up your shell script.
Your first line isn't correct -- you need "#!/bin/sh" (the / is
missing). Also, add -x to get a log of commands and substitutions.
Please ask someone familiar with shell programming if you need more
help --- this doesn't look like a Mira problem.
Good luck! --Bob
On 01/09/2015 09:31 AM, Felipe Lira wrote:
Hello all,
I was trying to run MIRA in a bash script but it stops at the first
genome and don't follow the downstream steps.
Any help or suggestions?
The short script that I tried:
....
#!bin/sh
samples = " 1 2 3 4 5 "
for s in ${samples}
do
time mira manifest_${s} >> log_output
done
.......
Felipe Lira
Spanish National Center of Biotechnology - CNB/ CSIC
/Microbial Biotechnology Department/
Fellow of http://obrasocial.lacaixa.es/
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hacerlo.
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