writeMask ( self )

writeMask() -> list of bool

standardResidue ( self,  type )

standardResidue(type: str) -> bool

readPDBfile ( self,  filename )

readPDBfile(filename: str) -> list of Molecule

ok ( self )

ok() -> bool

readPDBstream (
        self,
        input,
        filename,
        lineNum,
        )

readPDBstream(input: readable file-like, filename: str, lineNum: int) -> list of Molecule, int

addHBond (
        self,
        a0,
        a1,
        )

addHBond(a0: Atom, a1: Atom)

removeStandardResidue ( self,  type )

removeStandardResidue(type: str)

writePDBstream (
        self,
        mols,
        output,
        filename,
        )

writePDBstream(mols: sequence of Molecule, output: writable file-like, filename: str)

readSessionPDBstream (
        self,
        input,
        filename,
        lineNum,
        )

readSessionPDBstream(input: readable file-like, filename: str, lineNum: int) -> list of Molecule, int, dict of (int, Atom)

addStandardResidue ( self,  type )

addStandardResidue(type: str)

readMask ( self )

readMask() -> list of bool

readSessionPDBfile ( self,  filename )

readSessionPDBfile(filename: str) -> list of Molecule, dict of (int, Atom)

error ( self )

error() -> str

setBondLengthTolerance ( self,  t )

setBondLengthTolerance(t: float)

writePDBfile (
        self,
        mols,
        filename,
        )

writePDBfile(mols: sequence of Molecule, filename: str)

whatToDo ( self )

whatToDo() -> list of bool

bondLengthTolerance ( self )

bondLengthTolerance() -> float