YH-S2-Template: Difference between revisions

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=== Running Program ===
=== Running Program ===


Also refer to [[Running Jobs on Sapelo2]]
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.
Also refer to [[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]]


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
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</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 from <!-- ARCHIVE_URL BEGIN --> [http://trinityrnaseq.sourceforge.net/ Trinity] <!-- ARCHIVE_URL END -->
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 13:53, 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 -->

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Installation

Source code is obtained from Trinity

System

64-bit Linux