import os from modeller import * import IMP import IMP.test import IMP.core import IMP.modeller class Tests(IMP.test.TestCase): def test_soft_sphere(self): """Check loading of Modeller soft sphere restraints""" e = environ() e.edat.dynamic_sphere = True e.libs.topology.read('${LIB}/top_heav.lib') e.libs.parameters.read('${LIB}/par.lib') modmodel = model(e) modmodel.build_sequence('GGCC') m = IMP.Model() loader = IMP.modeller.ModelLoader(modmodel) protein = loader.load_atoms(m) for r in loader.load_dynamic_restraints(): m.add_restraint(r) modenergy = selection(modmodel).energy()[0] imp_score = m.evaluate(True) self.assertAlmostEqual(imp_score, modenergy, delta=1e-3) def test_lennard_jones(self): """Check loading of Modeller Lennard-Jones restraints""" e = environ() e.edat.dynamic_sphere = False e.edat.dynamic_lennard = True e.edat.contact_shell = 8.0 e.libs.topology.read('${LIB}/top_heav.lib') e.libs.parameters.read('${LIB}/par.lib') modmodel = model(e) modmodel.build_sequence('GGCC') m = IMP.Model() loader = IMP.modeller.ModelLoader(modmodel) protein = loader.load_atoms(m) for r in loader.load_dynamic_restraints(): m.add_restraint(r) modenergy = selection(modmodel).energy()[0] imp_score = m.evaluate(True) self.assertAlmostEqual(imp_score, modenergy, delta=1e-3) def test_coulomb(self): """Check loading of Modeller electrostatic restraints""" e = environ() e.edat.dynamic_sphere = False e.edat.dynamic_coulomb = True e.edat.contact_shell = 8.0 e.libs.topology.read('${LIB}/top_heav.lib') e.libs.parameters.read('${LIB}/par.lib') modmodel = model(e) modmodel.build_sequence('GGC') m = IMP.Model() loader = IMP.modeller.ModelLoader(modmodel) protein = loader.load_atoms(m) for r in loader.load_dynamic_restraints(): m.add_restraint(r) modenergy = selection(modmodel).energy()[0] imp_score = m.evaluate(True) self.assertAlmostEqual(imp_score, modenergy, delta=1e-3) if __name__ == '__main__': IMP.test.main()