Difference between revisions of "Vmd"
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|{{#vardefine:policy|}} <!--Enable policy section --> | |{{#vardefine:policy|}} <!--Enable policy section --> | ||
|{{#vardefine:testing|}} <!--Enable performance testing/profiling section --> | |{{#vardefine:testing|}} <!--Enable performance testing/profiling section --> | ||
− | |{{#vardefine:faq|}} <!--Enable FAQ section --> | + | |{{#vardefine:faq|1}} <!--Enable FAQ section --> |
|{{#vardefine:citation|1}} <!--Enable Reference/Citation section --> | |{{#vardefine:citation|1}} <!--Enable Reference/Citation section --> | ||
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*{{#var:app}} | *{{#var:app}} | ||
==System Variables== | ==System Variables== | ||
− | * HPC_{{ | + | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory |
+ | * HPC_{{uc:{{#var:app}}}}_BIN - executable directory | ||
+ | |||
{{#if: {{#var: exe}}|==How To Run== | {{#if: {{#var: exe}}|==How To Run== | ||
WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}} | WRITE INSTRUCTIONS ON RUNNING THE ACTUAL BINARY|}} | ||
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{{#if: {{#var: testing}}|==Performance== | {{#if: {{#var: testing}}|==Performance== | ||
WRITE PERFORMANCE TESTING RESULTS HERE|}} | WRITE PERFORMANCE TESTING RESULTS HERE|}} | ||
− | {{#if: {{#var: faq}}|== | + | {{#if: {{#var: faq}}|==Additional Information== |
− | + | ||
+ | If 3D visualization is required you will need to run this software on a HWGUI partition. | ||
+ | |}} | ||
+ | |||
{{#if: {{#var: citation}}|==Citation== | {{#if: {{#var: citation}}|==Citation== | ||
The authors request that all published work which utilizes VMD include the primary VMD citation at a minimum: <br/> | The authors request that all published work which utilizes VMD include the primary VMD citation at a minimum: <br/> | ||
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|}} | |}} | ||
+ | =Validation= | ||
+ | * Validated 4/5/2018 |
Latest revision as of 18:59, 17 November 2020
Description
VMD is a molecular visualization program for displaying, animating, and analyzing large biomolecular systems using 3-D graphics and built-in scripting.
Required Modules
Serial
- vmd
System Variables
- HPC_VMD_DIR - installation directory
- HPC_VMD_BIN - executable directory
Additional Information
If 3D visualization is required you will need to run this software on a HWGUI partition.
Citation
The authors request that all published work which utilizes VMD include the primary VMD citation at a minimum:
Humphrey, W., Dalke, A. and Schulten, K., "VMD - Visual Molecular Dynamics", J. Molec. Graphics, 1996, vol. 14, pp. 33-38.
For more information, visit the official How to Cite VMD webpage.
Validation
- Validated 4/5/2018