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=== MiV Case 6 perf sweep Thu 14 May 2026 07:03:17 PM UTC PBS_JOBID=8485151.aurora-pbs-0001.hostmgmt.cm.aurora.alcf.anl.gov ===
--- Input files ---
-rw-r--r-- 1 hyoklee gpu_hack 87M Apr 14 03:52 /lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small/MiV_Cells_Microcircuit_Small_20220410.h5
-rw-r--r-- 1 hyoklee gpu_hack 39M Apr 14 03:52 /lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small/MiV_Connections_Microcircuit_Small_20220410.h5
-rw-r--r-- 1 hyoklee gpu_hack 19K May 1 20:40 /lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small/MiV_gapjunctions_20230408.h5
-rw-r--r-- 1 hyoklee gpu_hack 19K May 1 19:37 /lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small/MiV_h5types_gj.h5
-rw-r--r-- 1 hyoklee gpu_hack 3.2M Apr 9 19:30 /lus/flare/projects/gpu_hack/iowarp/neuroh5/MiV_input_spikes.h5
--- Pre-staging to /dev/shm ---
Pre-stage: 0.365 s
=== Condition A: prefix=/lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small ===
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 6 exited with code 1
Condition A: fail_1 in 7.268s
=== Condition B: prefix=/dev/shm/miv_case6 ===
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
from miv_simulator import cells, lfp, lpt, synapses
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/cells.py", line 8, in <module>
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 11 exited with code 1
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 2 died from signal 15
Condition B: fail_143 in 2.544s
=== Condition C: prefix=/lus/flare/projects/gpu_hack/iowarp/neuroh5/Microcircuit_Small ===
from miv_simulator import network
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/network.py", line 12, in <module>
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
from miv_simulator import cells, lfp, lpt, synapses
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/cells.py", line 8, in <module>
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 7 exited with code 1
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 2 died from signal 15
Condition C: fail_143 in 2.062s
=== Condition D: prefix=/dev/shm/miv_case6 ===
from miv_simulator import cells, lfp, lpt, synapses
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/cells.py", line 8, in <module>
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
from miv_simulator.utils import (
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/miv_simulator/utils/__init__.py", line 1, in <module>
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
import h5py # must precede mpi4py import in utils.utils (Aurora HDF5 init order)
^^^^^^^^^^^
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
File "/home/hyoklee/miniconda3/envs/miv/lib/python3.12/site-packages/h5py/__init__.py", line 25, in <module>
from . import _errors
ImportError: /usr/lib64/libnl-3.so.200: version `libnl_3_5' not found (required by /home/hyoklee/miniconda3/envs/miv/lib/libnl-route-3.so.200)
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 10 exited with code 1
x4513c2s6b0n0.hsn.cm.aurora.alcf.anl.gov: rank 7 died from signal 15
Condition D: fail_143 in 1.900s
=== Done Thu 14 May 2026 07:03:31 PM UTC ===
Timing results: /home/hyoklee/wrp/run/miv_case6_perf_timing.csv
timestamp,condition,phase,elapsed_s
2026-05-14T19:03:18Z,prestage,copy,.365
2026-05-14T19:03:25Z,A,total,7.268
2026-05-14T19:03:27Z,B,total,2.544
2026-05-14T19:03:30Z,C,total,2.062
2026-05-14T19:03:31Z,D,total,1.900