help='Output VTK type')
args = parser.parse_args()
# Get the format of the input - either vtk or ply.
input_format, input_file_type = icqsol_utils.get_format_and_type(
args.input_file_format_and_type)
tmp_dir = icqsol_utils.get_temp_dir()
# Instantiate a ShapeManager for loading the input.
shape_mgr = icqsol_utils.get_shape_manager(input_format,
args.input_dataset_type)
# Get the vtk polydata from the input dataset.
vtk_poly_data = shape_mgr.loadAsVtkPolyData(args.input)
# Translate (in place operation).
displ = (args.displacement_x, args.displacement_y, args.displacement_z)
shape_mgr.translateVtkPolyData(vtk_poly_data, displ=displ)
# Save the output.
output_format, output_file_type = icqsol_utils.get_format_and_type(
args.output_vtk_type)
tmp_dir = icqsol_utils.get_temp_dir()
tmp_output_path = icqsol_utils.get_temporary_file_path(tmp_dir,
icqsol_utils.VTK)
shape_mgr.saveVtkPolyData(vtk_poly_data,
file_name=tmp_output_path,
file_type=output_file_type)
shutil.move(tmp_output_path, args.output)
args = parser.parse_args()
tmp_dir = icqsol_utils.get_temp_dir()
input_format, input_file_type = icqsol_utils.get_format_and_type(args.input_file_format_and_type)
# Instantiate a ShapeManager for loading the input.
shape_mgr = icqsol_utils.get_shape_manager(icqsol_utils.VTK, args.input_dataset_type)
# Get the vtkPolyData from the input dataset.
vtk_poly_data = shape_mgr.loadAsVtkPolyData(args.input)
# Add color to the data.
colored_vtk_poly_data = shape_mgr.colorSurfaceField(vtk_poly_data=vtk_poly_data,
color_map=args.color_map,
field_name=args.field_name,
field_component=args.field_component_index)
# Write min/max field values.
minVal, maxVal = shape_mgr.getFieldRange(vtk_poly_data, args.field_name, args.field_component_index)
print 'component {2} min/max values of field {3}: {0}/{1}'.format(minVal, maxVal, args.field_component_index, args.field_name)
# Define the output file format and type.
output_format, output_file_type = icqsol_utils.get_format_and_type(args.output_vtk_type)
tmp_output_path = icqsol_utils.get_temporary_file_path(tmp_dir, output_format)
# Make sure the ShapeManager's writer is VTK POLYDATA.
shape_mgr.setWriter(file_format=icqsol_utils.VTK, vtk_dataset_type=icqsol_utils.POLYDATA)
# Save the output.
shape_mgr.saveVtkPolyData(vtk_poly_data=colored_vtk_poly_data, file_name=tmp_output_path, file_type=output_file_type)
shutil.move(tmp_output_path, args.output)
parser.add_argument('--rotation_axis_z', dest='rotation_axis_z', type=float, default=0.0, help='Z coordinate of rotation axis')
parser.add_argument('--output', dest='output', help='Output file name')
parser.add_argument('--output_vtk_type', dest='output_vtk_type', default='ascii', help='Output VTK type')
args = parser.parse_args()
# Get the format of the input - either vtk or ply.
input_format, input_file_type = icqsol_utils.get_format_and_type(args.input_file_format_and_type)
tmp_dir = icqsol_utils.get_temp_dir()
# Instantiate a ShapeManager for loading the input.
shape_mgr = icqsol_utils.get_shape_manager(input_format, args.input_dataset_type)
# Get the vtk polydata from the input dataset.
vtk_poly_data = shape_mgr.loadAsVtkPolyData(args.input)
# Only rotate if the axis has some non-zero coordinates.
# FIXME: this should be handled in a Galaxy tool validator.
axis = (args.rotation_axis_x, args.rotation_axis_y, args.rotation_axis_z)
if reduce(operator.mul, axis) != 0.0:
# Rotate (in place operation).
shape_mgr.rotateVtkPolyData(vtk_poly_data, angleDeg=args.rotation_degrees, axis=axis)
output_format, output_file_type = icqsol_utils.get_format_and_type(args.output_vtk_type)
# Save the output.
tmp_dir = icqsol_utils.get_temp_dir()
tmp_output_path = icqsol_utils.get_temporary_file_path(tmp_dir, icqsol_utils.VTK)
shape_mgr.saveVtkPolyData(vtk_poly_data, file_name=tmp_output_path, file_type=output_file_type)
shutil.move(tmp_output_path, args.output)
