Difference between revisions of "CAP3"
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__NOEDITSECTION__ | __NOEDITSECTION__ | ||
[[Category:Software]][[Category:Bioinformatics]][[Category:Genomics]] | [[Category:Software]][[Category:Bioinformatics]][[Category:Genomics]] | ||
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<!--Main settings - REQUIRED--> | <!--Main settings - REQUIRED--> | ||
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|{{#vardefine:ver|20071015}} | |{{#vardefine:ver|20071015}} | ||
|{{#vardefine:url|http://seq.cs.iastate.edu/}} | |{{#vardefine:url|http://seq.cs.iastate.edu/}} | ||
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|{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | |{{#vardefine:exe|}} <!--Present manual instructions for running the software --> | ||
|{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF--> | |{{#vardefine:conf|}} <!--Enable config wiki page link - {{#vardefine:conf|1}} = ON/conf|}} = OFF--> | ||
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{{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}} | {{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}} | ||
| − | CAP3 is a sequence assembly program | + | CAP3 is a sequence assembly program. |
Intel processor optimized versions of cap3 and formcon are installed at HPC. | Intel processor optimized versions of cap3 and formcon are installed at HPC. | ||
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===Serial=== | ===Serial=== | ||
*{{#var:app}} | *{{#var:app}} | ||
| + | ==System Variables== | ||
| + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
* HPC_CAP3_BIN - location of the CAP3 executables directory | * HPC_CAP3_BIN - location of the CAP3 executables directory | ||
* HPC_CAP3_DOC - location of the CAP3 docs directory | * HPC_CAP3_DOC - location of the CAP3 docs directory | ||
* HPC_CAP3_EXAMPLE - location of the CAP3 examples directory | * HPC_CAP3_EXAMPLE - location of the CAP3 examples directory | ||
| − | {{#if: {{#var: exe}}|== | + | <!--Additional--> |
| + | {{#if: {{#var: exe}}|==Additional Information== | ||
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}} | WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}} | ||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
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WRITE CITATION HERE | WRITE CITATION HERE | ||
|}} | |}} | ||
| + | =Validation= | ||
| + | * Validated 4/5/2018 | ||
Revision as of 21:02, 6 December 2019
Description
CAP3 is a sequence assembly program.
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.
Required Modules
Serial
- cap3
System Variables
- HPC_CAP3_DIR - installation directory
- 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
Validation
- Validated 4/5/2018