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LorenFrankLab / spyglass

Neuroscience data analysis framework for reproducible research built by Loren Frank Lab at UCSF
https://lorenfranklab.github.io/spyglass/
MIT License
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New linkraw files don't have acquisition object #21

Closed lfrank closed 3 years ago

lfrank commented 3 years ago

After merging the new changes I was not able to run the populate notebook. It errors out in the DIOEvents (see below), but it has an initial problem where it cannot find the acquisition object.

Opening the nwbfile gives me something that doesn't contain an acquisition object at all, so I think that needs to be fixed.

Creating a copy of NWB file beans20190718-trim.nwb with link to raw ephys data: beans20190718-trim_linkraw.nwb
Populate Session...
Institution...
Lab...
LabMember...
Subject...
DataAcquisitionDevice...
CameraDevice...
Inserted ['beans sleep camera', 'beans run camera']
Probe...
Skipping Apparatus for now...
IntervalList...
Populate NwbfileKachery...
Computing SHA-1 and storing in kachery...
Computing sha1 and manifest of /Users/loren/data/nwb_builder_test_data/beans20190718-trim_linkraw.nwb
Populate ExperimenterList...
Populate ElectrodeGroup...
Populate Electrode...
Populate Raw...
WARNING: Unable to get aquisition object in: /Users/loren/data/nwb_builder_test_data/beans20190718-trim_linkraw.nwb
Populate SampleCount...
WARNING: Unable to get sample count object in: /Users/loren/data/nwb_builder_test_data/beans20190718-trim.nwb
WARNING: Unable to get sample count object in: /Users/loren/data/nwb_builder_test_data/beans20190718-trim_linkraw.nwb
Populate DIOEvants...

Error here...
rly commented 3 years ago

That's odd. This was working on my end based on the older develop_nwbraw code, so the error must have arisen from merging our changes. I'll take a look at this today.

lfrank commented 3 years ago

Thanks much.

Loren

Loren M. Frank

Professor
Howard Hughes Medical Institute Kavli Institute for Fundamental Neuroscience Departments of Physiology and Psychiatry University of California, San Francisco Office Phone: 415-502-7357

On Oct 16, 2020, at 4:38 PM, Ryan Ly notifications@github.com wrote:

That's odd. This was working on my end based on the older develop_nwbraw code, so the error must have arisen from merging our changes. I'll take a look at this today.

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