Difference between revisions of "Gmap"
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* 20070928 (used by [[PASA]]). | * 20070928 (used by [[PASA]]). | ||
* 20120111. | * 20120111. | ||
| − | * 20120323 | + | * 20120323. |
| + | * 20120427 (default). | ||
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{{#if: {{#var: mod}}|==Running the application using modules== | {{#if: {{#var: mod}}|==Running the application using modules== | ||
Revision as of 16:06, 4 May 2012
Description
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GMAP: A Genomic Mapping and Alignment Program for mRNA and EST Sequences, and
GSNAP: Genomic Short-read Nucleotide Alignment Program
Template:App Location
Available versions
- 20070928 (used by PASA).
- 20120111.
- 20120323.
- 20120427 (default).
Running the application using modules
To use gmap with the environment modules system at HPC the following commands are available:
Get module information for gmap:
$module spider gmap
Load the default application module:
$module load gmap
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_GMAP_DIR - directory where gmap is located.
- HPC_GMAP_BIN - executable directory.
Note: perl/5.14.1 and samtools/0.1.18" modules are automatically loaded for GMAP/GSNAP 20120323.