Source code for allensdk.brain_observatory

# Allen Institute Software License - This software license is the 2-clause BSD
# license plus a third clause that prohibits redistribution for commercial
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# Copyright 2017. Allen Institute. All rights reserved.
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# this list of conditions and the following disclaimer in the documentation
# and/or other materials provided with the distribution.
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import numpy as np
import sys
if sys.version_info < (3, 3):
    from collections import Iterable
else:
    from collections.abc import Iterable
import json
import uuid
import datetime
import dateutil


[docs]def dict_to_indexed_array(dc, order=None):
    ''' Given a dictionary and an ordered arr, build a concatenation of the dictionary's values and an index describing
    how that concatenation can be unpacked
    '''

    if order is None:
        order = dc.keys()

    data = []
    index = []
    counter = 0

    for key in order:

        if isinstance(dc[key], (np.ndarray, list)):
            extended = dc[key]
        if isinstance(dc[key], Iterable):
            extended = [x for x in dc[key]]
        else:
            extended = [dc[key]]

        counter += len(extended)
        index.append(counter)
        data.append(extended)

    data = np.concatenate(data)
    return index, data


[docs]class JSONEncoder(json.JSONEncoder):
[docs]    def default(self, o):
        if isinstance(o, datetime.datetime):
            return o.isoformat()
        elif isinstance(o, uuid.UUID):
            return str(o)
        return json.JSONEncoder.default(self, o)


[docs]def hook(json_dict):
    for key, value in json_dict.items():
        if key == 'experiment_date':
            json_dict[key] = dateutil.parser.parse(value)
        elif key == 'behavior_session_uuid':
            json_dict[key] = uuid.UUID(value)
        else:
            pass
    return json_dict
Source code for allensdk.brain_observatory

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