YH-S2-Template: Difference between revisions
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=== Running Program === | === Running Program === | ||
Please refer to [[Running Jobs on Sapelo2]], [Running_Jobs_on_Sapelo2#Running_an_X-windows_application | Run X window Jobs]] and [[Running_Jobs_on_Sapelo2#Running_an_Interactive_Job | Run interactive Jobs]] for generic details about running jobs at Sapelo2. | |||
[[Running_Jobs_on_Sapelo2#Running_an_Interactive_Job | Run interactive Jobs]] | |||
The last version is at /usr/local/apps/gb/<!-- LC_NAME BEGIN -->trinity<!-- LC_NAME END -->/<!-- VERSION BEGIN -->2.0.6<!-- VERSION END --> | The last version of this application is at /usr/local/apps/gb/<!-- LC_NAME BEGIN -->trinity<!-- LC_NAME END -->/<!-- VERSION BEGIN -->2.0.6<!-- VERSION END --> | ||
Here is an example of a shell script sub.sh to run on at the batch queue: | Here is an example of a shell script, sub.sh, to run on at the batch queue: | ||
<pre class="gscript"> | <pre class="gscript"> | ||
#PBS -S /bin/bash | #PBS -S /bin/bash | ||
| Line 40: | Line 38: | ||
</pre> | </pre> | ||
Here is an example of job submission | Here is an example of job submission command: | ||
<pre class="gcommand"> | <pre class="gcommand"> | ||
qsub ./sub.sh | qsub ./sub.sh | ||
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=== Installation === | === Installation === | ||
Source code is obtained from <!-- ARCHIVE_URL BEGIN --> [http://trinityrnaseq.sourceforge.net/ Trinity] <!-- ARCHIVE_URL END --> | |||
=== System === | === System === | ||
64-bit Linux | 64-bit Linux | ||
Revision as of 12:53, 13 July 2018
Category
Bioinformatics
Program On
Sapelo2
Version
2.0.6
Author / Distributor
Trinity
Description
"" More details are at Trinity
Running Program
Please refer to Running Jobs on Sapelo2, [Running_Jobs_on_Sapelo2#Running_an_X-windows_application | Run X window Jobs]] and Run interactive Jobs for generic details about running jobs at Sapelo2.
The last version of this application is at /usr/local/apps/gb/trinity/2.0.6
Here is an example of a shell script, sub.sh, to run on at the batch queue:
#PBS -S /bin/bash #PBS -N j_<!-- NAME BEGIN -->trinity<!-- NAME END --> #PBS -q batch #PBS -l nodes=1:ppn=1:AMD #PBS -l walltime=480:00:00 #PBS -l mem=10gb cd $PBS_O_WORKDIR <!-- TEST_COMMAND BEGIN --><!-- TEST_COMMAND END --> [options]
Here is an example of job submission command:
qsub ./sub.sh
Documentation
<!-- TEST_COMMAND_HELP BEGIN --><!-- TEST_COMMAND_HELP END -->
Installation
Source code is obtained from Trinity
System
64-bit Linux