search

vinayguntu / LUT_Prelim

2 stars 3 forks source link

Runtime error in plotting branch #16

Open MJC598 opened 3 years ago

MJC598 commented 3 years ago

When running the command: python run_bionet.py jsons/simulation_config.json on the plotting branch this error is generated. The x86_64 files have to be recompiled using nrnivmodl to fix the compatability errors in the .o/.c/.mod files

2021-05-03 13:48:30,082 [INFO] step:20000 t_sim:2000.00 ms 2021-05-03 13:48:30,085 [INFO] PGN firing rate = 3.00 Hz 2021-05-03 13:48:30,086 [INFO] Volume = 0.07 ml 2021-05-03 13:48:30,086 [INFO] Pressure = 9.97 cm H20 2021-05-03 13:48:30,086 [INFO] Bladder afferent firing rate = 0.48 Hz Traceback (most recent call last): File "/home/matt/anaconda3/envs/lut_vinnay/lib/python3.6/site-packages/bmtk/simulator/bionet/biosimulator.py", line 381, in post_fadvance mod.block(self, time_step_interval) File "/home/matt/repos/LUT_Prelim/feedback_loop.py", line 324, in block self._activate_hln(sim, block_interval, bladaff_fr) File "/home/matt/repos/LUT_Prelim/feedback_loop.py", line 61, in _activate_hln spikes = psg.get_times(0)*1000 # convert sec to ms File "/home/matt/anaconda3/envs/lut_vinnay/lib/python3.6/site-packages/bmtk/utils/reports/spike_trains/spike_train_buffer.py", line 153, in get_times pop = self._pops[population] KeyError: '' NEURON: PyObject method call failed: post_fadvance near line 0 ^ advance() step() continuerun(60500) run(60500) Traceback (most recent call last): File "run_bionet.py", line 55, in run(sys.argv[-1]) File "run_bionet.py", line 46, in run sim.run() File "/home/matt/anaconda3/envs/lut_vinnay/lib/python3.6/site-packages/bmtk/simulator/bionet/biosimulator.py", line 342, in run h.run(h.tstop) # <- runs simuation: works in parallel RuntimeError: hoc error

MJC598 commented 3 years ago

This has since been noticed on master. It only happens occasionally and likely has to do with parallel execution differences between hardwares (specifically if its running on a CPU vs GPU).