I try to run NEURON on cluster for parallel computing with CentOS. I built the code from source, with iv (even though I can't use GUI through console).
NEURON is working in general, but when I try to execute code with rxd - it crashes on the line:
Code: Select all
from neuron import rxd
Code: Select all
Warning: no DISPLAY environment variable.
--No graphics will be displayed.
Traceback (most recent call last):
File "morpho_diffusion.py", line 7, in <module>
from cells.cell_rxd import CellRxD
File "/home/ziemek/projects/morpho_neuro_rxd/cells/cell_rxd.py", line 1, in <module>
from neuron.rxd import rxd
File "/home/ziemek/nrn/lib/python/neuron/rxd/__init__.py", line 7, in <module>
from . import rxd
File "/home/ziemek/nrn/lib/python/neuron/rxd/rxd.py", line 2, in <module>
from . import species, node, section1d, region
File "/home/ziemek/nrn/lib/python/neuron/rxd/species.py", line 3, in <module>
from .section1d import Section1D
File "/home/ziemek/nrn/lib/python/neuron/rxd/section1d.py", line 3, in <module>
from . import node, rxdsection, nodelist
File "/home/ziemek/nrn/lib/python/neuron/rxd/node.py", line 3, in <module>
from . import region
File "/home/ziemek/nrn/lib/python/neuron/rxd/region.py", line 10, in <module>
from . import geometry as geo
File "/home/ziemek/nrn/lib/python/neuron/rxd/geometry.py", line 129, in <module>
inside.volumes3d = geometry3d.voxelize2
AttributeError: module 'neuron.rxd.geometry3d' has no attribute 'voxelize2'
Does anyone know what's wrong here?