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Re: parallel + blast + LSF

From: Martin d'Anjou
Subject: Re: parallel + blast + LSF
Date: Wed, 15 Apr 2015 10:24:13 -0400
User-agent: Mozilla/5.0 (X11; Linux x86_64; rv:31.0) Gecko/20100101 Thunderbird/31.6.0

On 15-04-15 09:34 AM, Giuseppe Aprea wrote:
Hi all,

I would like to ask you, please, some help in using parallel with blast alignment software.

I am trying to use GNU parallel v. 20150122 with blast for a very large sequences alignment. I am using Parallel on a cluster which uses LSF as queue system.

Hello Giuseppe,

I am an avid LSF user, and I want to use GNU Parallel to dispatch jobs to LSF. Could you please explain a little bit to me how GNU Parallel works with LSF? I do not see it in the on-line tutorials. For example, I would like to understand how to pass "bsub" options like -oo, -q queue_name, etc. to LSF from GNU Parallel.


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