Command error:
WARNING: While bind mounting '/orcd/data/dandi/001:/orcd/data/dandi/001': destination is already in the mount point list
Cloning into 'capsule-repo'...
+ python -u run_capsule.py
/opt/conda/lib/python3.11/site-packages/aind_nwb_utils/utils.py:1085: UserWarning: Session and rig metadata are both required.
warnings.warn("Session and rig metadata are both required.")
Traceback (most recent call last):
File "capsule/code/run_capsule.py", line 553, in <module>
append_io.write(nwbfile)
File "/opt/conda/lib/python3.11/site-packages/hdmf/utils.py", line 668, in func_call
return func(args[0], **pargs)
^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 395, in write
super().write(**kwargs)
File "/opt/conda/lib/python3.11/site-packages/hdmf/utils.py", line 668, in func_call
return func(args[0], **pargs)
^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/io.py", line 99, in write
self.write_builder(f_builder, **kwargs)
File "/opt/conda/lib/python3.11/site-packages/hdmf/utils.py", line 668, in func_call
return func(args[0], **pargs)
^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 842, in write_builder
self.write_group(self.__file, gbldr, **kwargs)
File "/opt/conda/lib/python3.11/site-packages/hdmf/utils.py", line 668, in func_call
return func(args[0], **pargs)
^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 1029, in write_group
self.write_dataset(group, sub_builder, **kwargs)
File "/opt/conda/lib/python3.11/site-packages/hdmf/utils.py", line 668, in func_call
return func(args[0], **pargs)
^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 1334, in write_dataset
dset = self.__list_fill__(parent, name, data, options)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 1500, in __list_fill__
raise e
File "/opt/conda/lib/python3.11/site-packages/hdmf/backends/hdf5/h5tools.py", line 1498, in __list_fill__
dset[:] = data
~~~~^^^
File "h5py/_objects.pyx", line 54, in h5py._objects.with_phil.wrapper
File "h5py/_objects.pyx", line 55, in h5py._objects.with_phil.wrapper
File "/opt/conda/lib/python3.11/site-packages/h5py/_hl/dataset.py", line 1002, in __setitem__
val = numpy.asarray(val, order='C', dtype=dt)
^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^^
ValueError: setting an array element with a sequence. The requested array has an inhomogeneous shape after 1 dimensions. The detected shape was (618,) + inhomogeneous part.
Example: https://dandiarchive.org/dandiset/001697/draft/files?location=derivatives/dandiset-000409/sub-KS051/sub-KS051_ses-7082d8ff-255a-47d7-a839-bf093483ec30_desc-raw_ecephys/pipeline-aind%2Bephys/version-v1.2.4_codebase-v0.3.46_params-1cbdbee_config-7940dfd_attempt-1&page=1