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  1. The Virtual Brain
  2. TVB-1795

Fix SimulatorTest.test_simulator_surface

    Details

    • Type: Bug
    • Status: Closed
    • Priority: Major
    • Resolution: Fixed
    • Affects Version/s: None
    • Fix Version/s: 1.4
    • Component/s: None
    • Labels:
      None

      Description

      CortexScientific._set_vertex_mapping if throwing an error when used for conectivity with cortical areas

      index 94 is out of bounds for axis 1 with size 76

      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/simulator/simulator.py", line 308, in configure
      self.preconfigure()
      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/simulator/simulator.py", line 261, in preconfigure
      self.surface.configure()
      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/datatypes/cortex_scientific.py", line 54, in configure
      self.region_average = self.region_mapping
      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/datatypes/cortex_scientific.py", line 138, in _set_region_average
      self.region_sum = spatial_mask
      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/datatypes/cortex_scientific.py", line 164, in _set_region_sum
      self.vertex_mapping = spatial_mask
      File "/opt/tvb/hudson_home/workspace/TVB - Linux64/scientific_library/tvb/datatypes/cortex_scientific.py", line 215, in _set_vertex_mapping
      vertex_mapping[numpy.arange(number_of_nodes), spatial_mask] = 1

      Line 197 (where variable number_of_areas is defined) for Connectivity 192 it gets 76 (as many cortical areas are in this connectivity), but later it is indexing in an array of this size with absolute indices (as if the full connectivity is referred).

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            • Assignee:
              marmaduke.woodman Marmaduke Woodman
              Reporter:
              lia.domide Lia Domide
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                Updated:
                Resolved:

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