single_cell_parser
❭ writer
❭ write_cell_simulation
write_cell_simulation¶
-
single_cell_parser.writer.write_cell_simulation(fname=
None
, cell=None
, traces=None
, tVec=None
, allPoints=False
, step_frames=10
, selected_index=None
)¶ Write Amira SpatialGraph files corresponding to time steps of entire simulation run.
Recorded quantities are passed in tuple traces with strings and recorded in Vectors attached to Sections of cell
Attention
Make sure to have created the cell with
allPoints = True
.Attention
Performs interpolation if
nseg != nrOfPts
for a Section- Parameters:¶
fname (str) – The name of the file to write to.
cell (
single_cell_parser.cell.Cell
) – The cell object.traces (list) – A list of strings, each representing a recorded quantity.
tVec (list) – A list of time points.
allPoints (bool) – If True, all points of the cell are written to the file.
step_frames (int) – The number of frames to write.
selected_index (list) – A list of indices of the sections to write.
Example:
>>> write\_cell\_simulation( ... '/output/directory', ... cell = cell, ... traces = ['Vm'], ... tVec = cell.tVec, ... step\_frames = 1, ... selected\_index=[selected\_index], ... allPoints = True)