IMP  2.2.1
The Integrative Modeling Platform
cube.py
1 ## \example em/cube.py
2 # The example creates a simple mrc file that is filled uniformly with 1s.
3 # In addition, a chimera file is written with a marker at each corner of
4 # the density. When both files are opened, the density should be centered
5 # among the markers. This can be used for testing for registration errors
6 # when reading and writing density maps.
7 
8 import IMP.em
9 import IMP.display
10 
12  IMP.algebra.Vector3D(11, 11, 11))
13 dm = IMP.em.create_density_map(bb, 2.5)
14 dmbb = IMP.em.get_bounding_box(dm)
15 print dmbb, bb
16 
17 for i in range(0, dm.get_number_of_voxels()):
18  dm.set_value(i, 1)
19 
20 nm = IMP.create_temporary_file_name("cube", ".mrc")
21 print nm
22 IMP.em.write_map(dm, nm)
23 
24 nm = IMP.create_temporary_file_name("cube", ".py")
25 print nm
27 
28 for v in IMP.algebra.get_vertices(bb):
30  w.add_geometry(g)
DensityMap * create_density_map(const algebra::GridD< 3, algebra::DenseGridStorageD< 3, float >, float > &grid)
Write geometry to a python file for Chimera to read.
Definition: ChimeraWriter.h:29
void write_map(DensityMap *m, std::string filename)
See IMP.em for more information.
Definition: CoarseCC.h:23
algebra::BoundingBoxD< 3 > get_bounding_box(const DensityMap *m)
Definition: DensityMap.h:461
VectorD< 3 > Vector3D
Definition: VectorD.h:395
base::Vector< VectorD< D > > get_vertices(const BoundingBoxD< D > &bb)
Return a list of the 8 bounding points for the bounding box.
Definition: BoundingBoxD.h:256
See IMP.display for more information.
Definition: ChimeraWriter.h:17