Index

A

acpype.acpype_params_ac module acpype.acpype_params_cns module acpype.acpype_params_gmx module acpype.acpype_params_gmx_opls module acpype_params_ac() (in module acpype.acpype_params_ac) acpype_params_cns() (in module acpype.acpype_params_cns)

acpype_params_gmx() (in module acpype.acpype_params_gmx) acpype_params_gmx_opls() (in module acpype.acpype_params_gmx_opls) AcpypeParamsAC (class in acpype.acpype_params_ac) AcpypeParamsCNS (class in acpype.acpype_params_cns) AcpypeParamsGMX (class in acpype.acpype_params_gmx) AcpypeParamsGMXOPLS (class in acpype.acpype_params_gmx_opls) ambertools.reduce_add_hydrogens module ambertools.reduce_remove_hydrogens module

B

babel_add_hydrogens() (in module babelm.babel_add_hydrogens) babel_convert() (in module babelm.babel_convert) babel_minimize() (in module babelm.babel_minimize) babel_remove_hydrogens() (in module babelm.babel_remove_hydrogens) BabelAddHydrogens (class in babelm.babel_add_hydrogens) BabelConvert (class in babelm.babel_convert) babelm.babel_add_hydrogens module

babelm.babel_convert module babelm.babel_minimize module babelm.babel_remove_hydrogens module BabelMinimize (class in babelm.babel_minimize) BabelRemoveHydrogens (class in babelm.babel_remove_hydrogens)

C

check_data_params() (acpype.acpype_params_ac.AcpypeParamsAC method) (acpype.acpype_params_cns.AcpypeParamsCNS method) (acpype.acpype_params_gmx.AcpypeParamsGMX method) (acpype.acpype_params_gmx_opls.AcpypeParamsGMXOPLS method) (ambertools.reduce_add_hydrogens.ReduceAddHydrogens method) (ambertools.reduce_remove_hydrogens.ReduceRemoveHydrogens method) (babelm.babel_add_hydrogens.BabelAddHydrogens method) (babelm.babel_convert.BabelConvert method) (babelm.babel_minimize.BabelMinimize method) (babelm.babel_remove_hydrogens.BabelRemoveHydrogens method)

create_cmd() (acpype.acpype_params_ac.AcpypeParamsAC method) (acpype.acpype_params_cns.AcpypeParamsCNS method) (acpype.acpype_params_gmx.AcpypeParamsGMX method) (acpype.acpype_params_gmx_opls.AcpypeParamsGMXOPLS method) (ambertools.reduce_add_hydrogens.ReduceAddHydrogens method) (ambertools.reduce_remove_hydrogens.ReduceRemoveHydrogens method) (babelm.babel_add_hydrogens.BabelAddHydrogens method) (babelm.babel_convert.BabelConvert method) (babelm.babel_minimize.BabelMinimize method) (babelm.babel_remove_hydrogens.BabelRemoveHydrogens method)

L

launch() (acpype.acpype_params_ac.AcpypeParamsAC method) (acpype.acpype_params_cns.AcpypeParamsCNS method) (acpype.acpype_params_gmx.AcpypeParamsGMX method) (acpype.acpype_params_gmx_opls.AcpypeParamsGMXOPLS method) (ambertools.reduce_add_hydrogens.ReduceAddHydrogens method) (ambertools.reduce_remove_hydrogens.ReduceRemoveHydrogens method) (babelm.babel_add_hydrogens.BabelAddHydrogens method) (babelm.babel_convert.BabelConvert method) (babelm.babel_minimize.BabelMinimize method) (babelm.babel_remove_hydrogens.BabelRemoveHydrogens method)

M

main() (in module acpype.acpype_params_ac) (in module acpype.acpype_params_cns) (in module acpype.acpype_params_gmx) (in module acpype.acpype_params_gmx_opls) (in module ambertools.reduce_add_hydrogens) (in module ambertools.reduce_remove_hydrogens) (in module babelm.babel_add_hydrogens) (in module babelm.babel_convert) (in module babelm.babel_minimize) (in module babelm.babel_remove_hydrogens)

module acpype.acpype_params_ac acpype.acpype_params_cns acpype.acpype_params_gmx acpype.acpype_params_gmx_opls ambertools.reduce_add_hydrogens ambertools.reduce_remove_hydrogens babelm.babel_add_hydrogens babelm.babel_convert babelm.babel_minimize babelm.babel_remove_hydrogens

R

reduce_add_hydrogens() (in module ambertools.reduce_add_hydrogens) reduce_remove_hydrogens() (in module ambertools.reduce_remove_hydrogens)

ReduceAddHydrogens (class in ambertools.reduce_add_hydrogens) ReduceRemoveHydrogens (class in ambertools.reduce_remove_hydrogens)