Difference between revisions of "CAP3"
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Moskalenko (talk | contribs) m (Text replace - "==Running the application using modules==" to "==Execution Environment and Modules==") |
Moskalenko (talk | contribs) m (Text replace - "Usage policy" to "Usage Policy") |
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{{#if: {{#var: pbs}}|==PBS Script Examples== | {{#if: {{#var: pbs}}|==PBS Script Examples== | ||
See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}} | See the [[{{PAGENAME}}_PBS]] page for {{#var: app}} PBS script examples.|}} | ||
| − | {{#if: {{#var: policy}}|==Usage | + | {{#if: {{#var: policy}}|==Usage Policy== |
WRITE USAGE POLICY HERE (perhaps templates for a couple of main licensing schemes can be used)|}} | WRITE USAGE POLICY HERE (perhaps templates for a couple of main licensing schemes can be used)|}} | ||
{{#if: {{#var: testing}}|==Performance== | {{#if: {{#var: testing}}|==Performance== | ||
Revision as of 16:30, 10 August 2012
Description
CAP3 is a sequence assembly program. See documentation at capdoc site.
Intel processor optimized versions of cap3 and formcon are installed at HPC.
Opteron optimized versions of these binaries are named cap3-opteron and formcon-opteron.
In addition, pcap binaries are also provided.
Execution Environment and Modules
To use cap3 with the environment modules system at HPC the following commands are available:
Get module information for cap3:
$module spider cap3
Load the default application module:
$module load cap3
The modulefile for this software adds the directory with executable files to the shell execution PATH and sets the following environment variables:
- HPC_CAP3_DIR - directory where cap3 is located.
- HPC_CAP3_BIN - location of the CAP3 executables directory
- HPC_CAP3_DOC - location of the CAP3 docs directory
- HPC_CAP3_EXAMPLE - location of the CAP3 examples directory