CHARMM: Difference between revisions
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Moskalenko (talk | contribs) Created page with "__NOTOC__ __NOEDITSECTION__ Category:SoftwareCategory:Chemistry <!-- ######## Template Configuration ######## --> <!--Edit definitions of the variables used in template ..." |
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__NOTOC__ | __NOTOC__ | ||
__NOEDITSECTION__ | __NOEDITSECTION__ | ||
[[Category:Software]][[Category:Chemistry]] | [[Category:Software]][[Category:Chemistry]][[Category:Simulation]] | ||
{|<!--Main settings - REQUIRED--> | |||
{| | |||
<!--Main settings - REQUIRED--> | |||
|{{#vardefine:app|charmm}} | |{{#vardefine:app|charmm}} | ||
|{{#vardefine:url|http://www.charmm.org/}} | |{{#vardefine:url|http://www.charmm.org/}} | ||
|{{#vardefine:exe|1}} <!--Present manual instructions for running the software --> | |||
|{{#vardefine: | |||
|{{#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--> | ||
|{{#vardefine:pbs|}} <!--Enable PBS script wiki page link--> | |{{#vardefine:pbs|}} <!--Enable PBS script wiki page link--> | ||
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<!--Description--> | <!--Description--> | ||
{{#if: {{#var: url}}| | {{#if: {{#var: url}}| | ||
{{App_Description|app={{#var:app}}|url={{#var:url}}}}|}} | {{App_Description|app={{#var:app}}|url={{#var:url}}|name={{#var:app}}}}|}} | ||
CHARMM (Chemistry at HARvard Macromolecular Mechanics): | CHARMM (Chemistry at HARvard Macromolecular Mechanics): | ||
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* can be utilized with various energy functions and models, from mixed quantum mechanical-molecular mechanical force fields, to all-atom classical potentials with explicit solvent and various boundary conditions, to implicit solvent and membrane models | * can be utilized with various energy functions and models, from mixed quantum mechanical-molecular mechanical force fields, to all-atom classical potentials with explicit solvent and various boundary conditions, to implicit solvent and membrane models | ||
* has been ported to numerous platforms in both serial and parallel architectures | * has been ported to numerous platforms in both serial and parallel architectures | ||
<!-- --> | <!-- --> | ||
<!--Modules--> | |||
==Environment Modules== | |||
Run <code>module spider {{#var:app}}</code> to find out what environment modules are available for this application. | |||
==System Variables== | |||
{{ | * HPC_{{uc:{{#var:app}}}}_DIR - installation directory | ||
* HPC_{{uc:{{#var:app}}}}_BIN - binary directory | |||
{{#if: {{#var: conf}}|==Configuration== | {{#if: {{#var: conf}}|==Configuration== | ||
See the [[{{PAGENAME}}_Configuration]] page for {{#var: app}} configuration details.|}} | See the [[{{PAGENAME}}_Configuration]] page for {{#var: app}} configuration details.|}} | ||
<!--Additional--> | |||
{{#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== | ||
Latest revision as of 20:31, 17 December 2024
Description
CHARMM (Chemistry at HARvard Macromolecular Mechanics):
- is a versatile and widely used molecular simulation program with broad application to many-particle systems
- has been developed with a primary focus on the study of molecules of biological interest, including peptides, proteins, prosthetic groups, small molecule ligands, nucleic acids, lipids, and carbohydrates, as they occur in solution, crystals, and membrane environments
- provides a large suite of computational tools that encompass numerous conformational and path sampling methods, free energy estimates, molecular minimization, dynamics, and analysis techniques, and model-building capabilities
- is useful for a much broader class of many-particle systems
- can be utilized with various energy functions and models, from mixed quantum mechanical-molecular mechanical force fields, to all-atom classical potentials with explicit solvent and various boundary conditions, to implicit solvent and membrane models
- has been ported to numerous platforms in both serial and parallel architectures
Environment Modules
Run module spider charmm to find out what environment modules are available for this application.
System Variables
- HPC_CHARMM_DIR - installation directory
- HPC_CHARMM_BIN - binary directory