test.Workshop8test Namespace Reference

Variables
	extra_options
	pose = pose_from_file("../test/data/test_in.pdb")
	ft = FoldTree()
	pmm = PyMOLMover()
	movemap = MoveMap()
	loop1 = protocols.loops.Loop(15, 24, 19)
	ccd = protocols.loops.loop_closure.ccd.CCDLoopClosureMover(loop1, movemap)
	loop2 = protocols.loops.Loop(78, 83, 80)
	loops = protocols.loops.Loops()
	reference_pose = pose_from_file("../test/data/test_in.pdb")
	score = get_score_function()
	output = tempfile.mkstemp()[1]
	jd = PyJobDistributor(output, 1, score)
	lrms = loop_rmsd(pose, reference_pose, loops, True)
	additional_decoy_info
	loop_refine = LoopMover_Refine_CCD(loops)
	sw_low = SwitchResidueTypeSetMover("centroid")
	kic_perturb = protocols.loops.loop_mover.perturb.LoopMover_Perturb_KIC(loops)
	sw_high = SwitchResidueTypeSetMover("fa_standard")
	kic_refine = protocols.loops.loop_mover.refine.LoopMover_Refine_KIC(loops)
	kic_mover = KinematicMover()

Variable Documentation

additional_decoy_info

test.Workshop8test.additional_decoy_info

ccd

test.Workshop8test.ccd = protocols.loops.loop_closure.ccd.CCDLoopClosureMover(loop1, movemap)

extra_options

test.Workshop8test.extra_options

ft

test.Workshop8test.ft = FoldTree()

jd

test.Workshop8test.jd = PyJobDistributor(output, 1, score)

kic_mover

test.Workshop8test.kic_mover = KinematicMover()

kic_perturb

test.Workshop8test.kic_perturb = protocols.loops.loop_mover.perturb.LoopMover_Perturb_KIC(loops)

kic_refine

test.Workshop8test.kic_refine = protocols.loops.loop_mover.refine.LoopMover_Refine_KIC(loops)

loop1

test.Workshop8test.loop1 = protocols.loops.Loop(15, 24, 19)

loop2

test.Workshop8test.loop2 = protocols.loops.Loop(78, 83, 80)

loop_refine

test.Workshop8test.loop_refine = LoopMover_Refine_CCD(loops)

loops

test.Workshop8test.loops = protocols.loops.Loops()

lrms

test.Workshop8test.lrms = loop_rmsd(pose, reference_pose, loops, True)

movemap

test.Workshop8test.movemap = MoveMap()

output

test.Workshop8test.output = tempfile.mkstemp()[1]

pmm

test.Workshop8test.pmm = PyMOLMover()

pose

test.Workshop8test.pose = pose_from_file("../test/data/test_in.pdb")

reference_pose

test.Workshop8test.reference_pose = pose_from_file("../test/data/test_in.pdb")

Referenced by add_fnr_constraints(), MinTestMover.apply(), main(), mg_modeler_test(), rna_build_helix_test_precompute(), and rna_sequence_recovery_metrics().

score

test.Workshop8test.score = get_score_function()

sw_high

test.Workshop8test.sw_high = SwitchResidueTypeSetMover("fa_standard")

sw_low

test.Workshop8test.sw_low = SwitchResidueTypeSetMover("centroid")