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# -*- coding: utf-8 -*-
#
# Copyright (C) 2020-2024 Matthias Klumpp <matthias@tenstral.net>
#
# Licensed under the GNU Lesser General Public License Version 3
#
# This program is free software: you can redistribute it and/or modify
# it under the terms of the GNU Lesser General Public License as published by
# the Free Software Foundation, either version 3 of the license, or
# (at your option) any later version.
#
# This software is distributed in the hope that it will be useful,
# but WITHOUT ANY WARRANTY; without even the implied warranty of
# MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE. See the
# GNU Lesser General Public License for more details.
#
# You should have received a copy of the GNU Lesser General Public License
# along with this software. If not, see <http://www.gnu.org/licenses/>.
import os
from datetime import datetime
import numpy as np
import edlio
from edlio import ureg
def test_load_intan_raw(samples_dir):
test_coll = edlio.load(os.path.join(samples_dir, 'blink1'))
assert test_coll.collection_idname == 'blink1_21-02-08_a87011'
dset = test_coll.dataset_by_name('intan-signals')
for intan in dset.read_data(include_nosync_time=True):
times = intan.sync_times
dig_chan_all = intan.digin_channels_raw
assert dig_chan_all.any()
ts_raw = intan._raw_data['timestamp']
assert ts_raw.any()
assert intan._timestamp_len == 1304640
assert intan.digin_channels_raw[0].size == 1304640
assert times[0] == 6.196 * ureg.ms
assert intan._nosync_ts[0] == 6.196 * ureg.ms
def test_load_tsync_only(samples_dir):
test_coll = edlio.load(os.path.join(samples_dir, 'blink1'))
assert test_coll.collection_idname == 'blink1_21-02-08_a87011'
dset = test_coll.group_by_name('videos').dataset_by_name('miniscope')
tsync_data = [tsync for tsync in dset.read_aux_data('tsync')]
assert len(tsync_data) == 1
tsync = tsync_data[0]
assert tsync.time_units == (ureg.dimensionless, ureg.millisecond)
assert tsync.time_labels == ('frame-no', 'master-time')
assert tsync.time_created == datetime.fromisoformat('2021-02-08 17:17:31')
assert tsync.times.shape == (1287, 2)
assert tsync.times.size == 2574
def test_load_json_csv(samples_dir):
jcstore = edlio.load(os.path.join(samples_dir, 'jsoncsv1'))
assert jcstore.collection_idname == 'jsoncsv1_24-02-18_336077'
# check reading a pandas-extended JSON integer numbers set
dset = jcstore.dataset_by_name('numbers-json')
assert dset.attributes == {
'json_data_unit': 'au',
'json_schema': 'extended-pandas',
'json_time_unit': 'milliseconds',
}
dfs = list(dset.read_data())
assert len(dfs) == 1
assert dfs[0].dtypes.array == [np.int64, np.int64]
assert dfs[0].columns.array == ['timestamp_msec', 'Int 1']
assert dfs[0].shape == (4524, 2)
# check reading a pandas-compatible JSON float numbers set
dset = jcstore.dataset_by_name('sines-json')
assert dset.attributes == {
'json_data_unit': 'au',
'json_schema': 'pandas-split',
'json_time_unit': 'milliseconds',
}
dfs = list(dset.read_data())
assert len(dfs) == 1
assert dfs[0].dtypes.array == [np.int64, np.float64, np.float64, np.float64]
assert dfs[0].columns.array == ['timestamp_msec', 'Sine 1', 'Sine 2', 'Sine 3']
assert dfs[0].shape == (4524, 4)
# check reading a JSON string table
dset = jcstore.dataset_by_name('table-json')
assert dset.attributes == {'json_schema': 'pandas-split'}
dfs = list(dset.read_data())
assert len(dfs) == 1
assert dfs[0].dtypes.array == [np.int64, np.dtype('O'), np.dtype('O')]
assert dfs[0].columns.array == ['Time', 'Tag', 'Value']
assert dfs[0].shape == (5, 3)
# check reading a CSV table as Pandas DataFrame
dset = jcstore.dataset_by_name('table-csv')
dfs = list(dset.read_data(as_dataframe=True))
assert len(dfs) == 1
assert dfs[0].dtypes.array == [np.int64, np.dtype('O'), np.dtype('O')]
assert dfs[0].columns.array == ['Time', 'Tag', 'Value']
assert dfs[0].shape == (5, 3)
# check reading a CSV table row-by-row
dset = jcstore.dataset_by_name('table-csv')
rows = list(dset.read_data())
assert len(rows) == 6
assert rows[0] == ['Time', 'Tag', 'Value']
assert rows[-1] == ['20015', 'beta', 'eLcwGIFVu1A9NV']
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