Difference between revisions of "Applications/Qiime2"
From HPC
m (→Further Information) |
(→Batch Job) |
||
| (3 intermediate revisions by the same user not shown) | |||
| Line 17: | Line 17: | ||
</pre> | </pre> | ||
| + | |||
| + | ===Batch Job=== | ||
| + | <!--From: https://wiki.orc.gmu.edu/mkdocs/qiime2_on_argo_tutorial/ --> | ||
| + | <pre> | ||
| + | #!/bin/bash | ||
| + | #SBATCH -J qiime2job | ||
| + | #SBATCH n 4 | ||
| + | #SBATCH --mem=5G | ||
| + | #SBATCH -o %N.%j.%a.out | ||
| + | #SBATCH -e %N.%j.%a.err | ||
| + | #SBATCH -p compute | ||
| + | |||
| + | module purge | ||
| + | module load qiime2/qiime2-018.11 | ||
| + | |||
| + | ## Run your program or script | ||
| + | ##For script: write your script then make it executable with: chmod +x qiime.sh | ||
| + | ./qiime.sh | ||
| + | </pre> | ||
| + | |||
| + | See [[FurtherTopics/Command_Line_File_Permissions #Changing access rights | File Permissions]] for more info on chmod. | ||
==Further Information== | ==Further Information== | ||
Latest revision as of 13:08, 17 November 2022
Application Details
- Description: QIIME 2 is a next-generation microbiome bioinformatics platform that is extensible, free, open source, and community developed.
- Version: 2018-11
- Modules: qiime2/qiime2-2018.11
- Licence: Open source
Usage Examples
Usage information can be found at https://docs.qiime2.org/2018.11/
[username@login01 ~]$ module add qiime2/qiime2-2018.11
Batch Job
#!/bin/bash #SBATCH -J qiime2job #SBATCH n 4 #SBATCH --mem=5G #SBATCH -o %N.%j.%a.out #SBATCH -e %N.%j.%a.err #SBATCH -p compute module purge module load qiime2/qiime2-018.11 ## Run your program or script ##For script: write your script then make it executable with: chmod +x qiime.sh ./qiime.sh
See File Permissions for more info on chmod.