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src/p/y/Pymol-script-repo-HEAD/modules/ADT/AutoDockTools/MoleculePreparation.py   Pymol-script-repo(Download)
from AutoDockTools.atomTypeTools import AutoDock4_AtomTyper
 
from AutoDockTools.AutoDockBondClassifier import AutoDockBondClassifier
 
 
        if not len(atoms.bonds[0]):
            mol.buildBondsByDistance()
        ADBC = self.ADBC = AutoDockBondClassifier(detectAll=self.detectAll)
        dict =self.dict = ADBC.classify(mol.allAtoms.bonds[0])
        #turn everything off 

src/p/y/Pymol-script-repo-HEAD/modules/ADT/AutoDockTools/LigandMixin.py   Pymol-script-repo(Download)
from string import find
from MolKit.pdbWriter import PdbqWriter
from AutoDockTools.AutoDockBondClassifier import AutoDockBondClassifier
from AutoDockTools.observer import Subject
from MolKit.molecule import Atom, AtomSet, BondSet
        self.maxtors = 32
        self.autoMergeNPHS = autoMergeNPHS
        self.bondClassifier = AutoDockBondClassifier()
        self.torsionTree = None
        self.message = ""