Difference between revisions of "YH-T-Template"
| Line 28: | Line 28: | ||
<div class="gscript"> | <div class="gscript"> | ||
<nowiki>#</nowiki>!/bin/bash | <nowiki>#</nowiki>!/bin/bash | ||
| − | #SBATCH --job-name=j_<!-- NAME BEGIN -->trinity<!-- NAME END --> | + | <nowiki>#</nowiki>SBATCH --job-name=j_<!-- NAME BEGIN -->trinity<!-- NAME END --> |
| − | #SBATCH --partition=batch | + | <nowiki>#</nowiki>SBATCH --partition=batch |
| − | #SBATCH --mail-type=ALL | + | <nowiki>#</nowiki>SBATCH --mail-type=ALL |
| − | #SBATCH --mail-user=<u>username@uga.edu</u> | + | <nowiki>#</nowiki>SBATCH --mail-user=<u>username@uga.edu</u> |
| − | #SBATCH --ntasks=<u>1</u> | + | <nowiki>#</nowiki>SBATCH --ntasks=<u>1</u> |
| − | #SBATCH --mem=<u>10gb</u> | + | <nowiki>#</nowiki>SBATCH --mem=<u>10gb</u> |
| − | #SBATCH --time=<u>08:00:00</u> | + | <nowiki>#</nowiki>SBATCH --time=<u>08:00:00</u> |
| − | #SBATCH --output=<!-- NAME BEGIN -->trinity<!-- NAME END -->.%j.out | + | <nowiki>#</nowiki>SBATCH --output=<!-- NAME BEGIN -->trinity<!-- NAME END -->.%j.out |
cd $SLURM_SUBMIT_DIR | cd $SLURM_SUBMIT_DIR | ||
Revision as of 21:55, 6 August 2018
Category
Bioinformatics
Program On
Teaching
Version
2.0.6
Author / Distributor
Trinity
Description
"" More details are at Trinity
Running Program
Please refer to Running_Jobs_on_the_teaching_cluster, Run X window Jobs and Run interactive Jobs for generic details about running jobs at Teaching.
The last version of this application is at trinity
Here is an example of a shell script, sub.sh, to run on at the batch queue:
#!/bin/bash #SBATCH --job-name=j_trinity #SBATCH --partition=batch #SBATCH --mail-type=ALL #SBATCH --mail-user=username@uga.edu #SBATCH --ntasks=1 #SBATCH --mem=10gb #SBATCH --time=08:00:00 #SBATCH --output=trinity.%j.out
cd $SLURM_SUBMIT_DIR
cd $PBS_O_WORKDIR ml [options]
Here is an example of job submission command:
sbatch ./sub.sh
Documentation
<!-- TEST_COMMAND_HELP BEGIN --><!-- TEST_COMMAND_HELP END -->
Installation
Source code is obtained from Trinity
System
64-bit Linux