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tutorial_pipeline/mouse_session.py

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import datajoint as dj
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from . import data_dir
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# fail-safe user name retrieval
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username = dj.conn().conn_info['user']
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schema = dj.schema('{}_tutorial_pipeline'.format(username))
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# Table definitions
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@schema
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class Mouse(dj.Manual):
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definition = """
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# Experimental animals
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mouse_id : int # Unique animal ID
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---
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dob=null : date # date of birth
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sex="unknown" : enum('M','F','unknown') # sex
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"""
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@schema
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class Session(dj.Manual):
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definition = """
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# Experiment session
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-> Mouse
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session_date : date # date
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---
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experiment_setup : int # experiment setup ID
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experimenter : varchar(100) # experimenter name
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data_path='' : varchar(255) #
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"""
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# Insert the following data into the table
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mouse_data = [
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{'dob': "2017-03-01", 'mouse_id': 0, 'sex': 'M'},
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{'dob': "2016-11-19", 'mouse_id': 1, 'sex': 'M'},
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{'dob': "2016-11-20", 'mouse_id': 2, 'sex': 'unknown'},
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{'dob': "2016-12-25", 'mouse_id': 5, 'sex': 'F'},
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{'dob': "2017-01-01", 'mouse_id': 10, 'sex': 'F'},
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{'dob': "2017-01-03", 'mouse_id': 11, 'sex': 'F'},
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{'dob': "2017-05-12", 'mouse_id': 100, 'sex': 'F'}
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]
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session_data = [
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{'experiment_setup': 0,
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'experimenter': 'Edgar Y. Walker',
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'mouse_id': 0,
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'session_date': "2017-05-15",
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'data_path': data_dir.as_posix()
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},
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{'experiment_setup': 0,
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'experimenter': 'Edgar Y. Walker',
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'mouse_id': 0,
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'session_date': "2017-05-19",
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'data_path': data_dir.as_posix()
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},
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{'experiment_setup': 1,
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'experimenter': 'Fabian Sinz',
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'mouse_id': 5,
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'session_date': "2017-01-05",
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'data_path': data_dir.as_posix()
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},
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{'experiment_setup': 100,
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'experimenter': 'Jacob Reimer',
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'mouse_id': 100,
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'session_date': "2017-05-25",
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'data_path': data_dir.as_posix()
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}
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]
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Mouse.insert(mouse_data, skip_duplicates=True)
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Session.insert(session_data, skip_duplicates=True)

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