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Build a classifier to classify ROIs as cell for the SSF dataset

aamster

Write metadata files for VBN release

1

Once we have code to write the metadata files required for the VBN release, we need to generate the metadata files. Note that this will be blocked by NWB generation...

danielsf

As discussed in #2412 the date_of_acquisition column in the LIMS ecephys_sessions table does not agree with the start_time recorded in the stimulus pickle file. We should figure out why that...

danielsf

#2407 created a `lims_queries.py` module to handle all of the LIMS database queries necessary to generate the metadata tables for the VBN 2022 release. There is an ecephys-related LIMS API...

danielsf

BehaviorSession should raise exception if a user tries to load a VBN session

5

**Describe the use case that is addressed by this feature.** The `BehaviorSession` object lets users load behavioral data from the training behavioral boxes as well as the ophys rigs. However,...

alexpiet

Add unit test for VBN metadata LIMS queries

1

PR #2407 adds a lot of methods that do some simple (if verbose) lims queries. These queries can be found in ``` allensdk/brain_observatory/vbn_2022/metadata_writer/lims_queries.py ``` (assuming that organization persists beyond code...

danielsf

Check that VCN session access is not being broken by VBN development work

1

There is a risk that the work we are doing in support of VBN will break access to the VCN session objects released in 2019. We need to create a...

danielsf

calculate_dvdt(v_window, t_window, filter) throwing an error

2

**Describe the bug** I'm calling the putative_spike_detection function on some optical electrophysiology data. The data is squeezed to a range of -80,80 mV. The function runs smoothly until it calls...

ImagineOrange

py.test is not executing tests in allensdk/test/internal

1

Running `py.test allensdk/test/internal` results in ``` (allensdk_38) osxltFMD6W:AllenSDK scott.daniel$ py.test allensdk/test/internal/ /Users/scott.daniel/miniconda3/envs/allensdk_38/lib/python3.8/site-packages/pep8.py:109: FutureWarning: Possible nested set at position 1 EXTRANEOUS_WHITESPACE_REGEX = re.compile(r'[[({] | []}),;:]') ============================= test session starts ============================== platform...

danielsf

Implement EyeTrackingMetadataFile.from_lims

1

As part of addressing #2375, the EyeTrackingMetadataFile class was created to track the JSON file where metadata about the eye tracking camera recording is stored. Because of the time constraints...

danielsf