Details
Minor Description
Running a surface simulation with subcortical regions in the connectome
caused an error when using the SpatialAverage monitor together with the default spatial mask,
i.e. this will default to the surface region map.
This is not enough, because it ignores the subcortical regions and causes a shape mismatch
when configuring the monitor.
Traceback (most recent call last): File "/Users/pault/miniconda3/envs/tvb/lib/python3.7/multiprocessing/pool.py", line 121, in worker result = (True, func(*args, **kwds)) File "/Users/pault/miniconda3/envs/tvb/lib/python3.7/multiprocessing/pool.py", line 44, in mapstar return list(map(*args)) File "/Users/pault/Projects/neural_field_epileptor/SIMULATE.py", line 111, in run_one_epi_sim sim.configure() File "/Users/pault/miniconda3/envs/tvb/lib/python3.7/site-packages/tvb/simulator/simulator.py", line 288, in configure self._configure_monitors() File "/Users/pault/miniconda3/envs/tvb/lib/python3.7/site-packages/tvb/simulator/simulator.py", line 534, in _configure_monitors monitor.config_for_sim(self) File "/Users/pault/miniconda3/envs/tvb/lib/python3.7/site-packages/tvb/simulator/monitors.py", line 280, in config_for_sim raise Exception(msg) Exception: spatial_mask must be a vector of length number_of_nodes.
Would it make sense to use the simulator._regmap attribute instead of simulator.surface.region_mapping,
because the subcortical regions are included there ?
In monitors.py on line 265.
