Index

_

__init__() (autosolvate.solventBoxBuilder method)

B

build() (autosolvate.solventBoxBuilder method)

C

clustergen() (in module autosolvate.clustergen)

createAmberParm() (autosolvate.solventBoxBuilder method) createLib() (autosolvate.solventBoxBuilder method)

G

getFrcmod() (autosolvate.solventBoxBuilder method)

getHeadTail() (autosolvate.solventBoxBuilder method) getSolutePDB() (autosolvate.solventBoxBuilder method)

P

packSLUSLV() (autosolvate.solventBoxBuilder method)

processPackmolPDB() (autosolvate.solventBoxBuilder method)

R

runMM() (in module autosolvate.generatetrajs)

runQMMM() (in module autosolvate.generatetrajs)

S

solventBoxBuilder (class in autosolvate) startboxgen() (in module autosolvate)

startclustergen() (in module autosolvate.clustergen) startmd() (in module autosolvate.generatetrajs)

W

writeMMheatInput() (in module autosolvate.generatetrajs) writeMMminInput() (in module autosolvate.generatetrajs) writeMMNPTInput() (in module autosolvate.generatetrajs) writeMMNVEInput() (in module autosolvate.generatetrajs) writeQMMMInput() (in module autosolvate.generatetrajs)

writeQMMMMinInput() (in module autosolvate.generatetrajs) writeQMMMTemplate() (in module autosolvate.generatetrajs) writeTleapcmd1() (autosolvate.solventBoxBuilder method) writeTleapcmd_add_solvent() (autosolvate.solventBoxBuilder method) writeTleapcmd_custom_solvated() (autosolvate.solventBoxBuilder method)