swc2vtk package¶
Submodules¶
swc2vtk.genprimitives module¶
Created on Thu Jun 9 12:37:20 2016
@author: nebula
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class
swc2vtk.genprimitives.GenPrimitives¶ -
static
base_sphere(div=10)¶
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static
cuboid()¶
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static
cylinder(div=8, top_face_diam=1.0)¶
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static
cylinder_3cell(div=8, top_face_diam=1.0)¶
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static
hemisphere(div=10)¶
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static
hemisphere_cylinder(div=8, top_face_diam=1.0, height=1.0, radius=1.0)¶
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static
line(pos1=(0, 0, 0), pos2=(1, 0, 0), data=0.0, point_start=0)¶
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classmethod
sphere(pos=(0, 0, 0), size=1.0, data=0.0, point_start=0)¶
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static
swc2vtk.vtkgenerator module¶
Created on Thu Jun 9 12:37:20 2016
@author: nebula
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class
swc2vtk.vtkgenerator.VtkGenerator¶ -
add_cylinder(pos_x=0, pos_y=0, pos_z=0, radius=1.0, height=1.0, rot_y=0, rot_z=0, data=0.0, radius_ratio=1.0)¶
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add_cylinder_p2p(pos1=(0, 0, 0), pos2=(2, 0, 0), size=1.0, data=0, radius_ratio=1.0)¶
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add_datafile(datafilename)¶
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add_mark(pos=(0, 0, 0), size=1.0, data=0.0)¶
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add_swc(swc_filename, shift_x=0.0, shift_y=0.0, shift_z=0.0, inv_x=False, inv_y=False, inv_z=False)¶ add swc file for generating vtk file
Parameters: - swc_filename – swc filename
- shift_x –
- shift_y –
- shift_z –
- inv_x –
- inv_y –
- inv_z –
Returns:
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add_swc_connection(swc_index1, swc_compartment1, swc_index2, swc_compartment2, size=1.0, data=1.0)¶
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add_swc_mark(swc_index, compartment_index, size=1.0, data=0.0)¶
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clear_datafile()¶
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convert_swc(diam_ratio=1.0, normalize_diam=False)¶
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header_base= '# vtk DataFile Version 3.0\nSWC2VTK\nASCII\nDATASET UNSTRUCTURED_GRID\n'¶
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set_draw_mode(draw_mode)¶
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show_state()¶
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volume_header_base= '# vtk DataFile Version 1.0\nSWC2VTK VOLUME\nASCII\nDATASET STRUCTURED_POINTS\n'¶
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write_annotation_vtk(filename)¶
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write_swc(filename, swc_index=0, comment='swc2vtk')¶
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write_volume_vtk(filename, origin=(0.0, 0.0, 0.0), ratio=(1.0, 1.0, 1.0), div=(256, 256, 64))¶
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write_vtk(filename, fixedval=None, datatitle='filedata', movingval=False, coloring=False, diam_ratio=1.0, normalize_diam=False, radius_data=False, type_data=False)¶ generate and write vtk to file
Parameters: - filename (text) – Output VTK filename
- fixedval (float) – add fixed value to CELL_DATA in VTK file
- datatitle (text) – change title of CELL_DATA from appended data file
- movingval (bool) – add moving value to CELL_DATA in VTK file
- coloring (bool) – add coloring data to CELL_DATA in VTK file
- diam_ratio (float) – multiply diam_ratio to all diameter of SWC compartments
- normalize_diam (bool) – sqrt(diam) to normalize diameter of SWC compartments
- radius_data (bool) – add radius information of SWC compartments to CELL_DATA in VTK file
- type_data (bool) – Output type information of SWC compartments to CELL_DATA in VTK file
Returns:
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