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34440068a7
The timestamp is in the LOG module, at an offset of either 465 or 469. There is no obvious marker for which files have it at 465 and which at 469.
187 lines
6.6 KiB
Python
187 lines
6.6 KiB
Python
# -*- coding: utf-8 -*-
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import os.path
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import re
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from datetime import date, datetime
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import numpy as np
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from numpy.testing import assert_array_almost_equal, assert_array_equal
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from nose.tools import ok_, eq_, raises
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from ..import MPTfile, MPRfile
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from ..BioLogic import MPTfileCSV # not exported
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testdata_dir = os.path.join(os.path.dirname(__file__), 'testdata')
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def test_open_MPT():
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mpt1, comments = MPTfile(os.path.join(testdata_dir, 'bio-logic1.mpt'))
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eq_(comments, [])
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eq_(mpt1.dtype.names, ("mode", "ox/red", "error", "control changes",
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"Ns changes", "counter inc.", "time/s",
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"control/V/mA", "Ewe/V", "dQ/mA.h", "P/W",
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"I/mA", "(Q-Qo)/mA.h", "x"))
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@raises(ValueError)
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def test_open_MPT_fails_for_bad_file():
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mpt1 = MPTfile(os.path.join(testdata_dir, 'bio-logic1.mpr'))
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def test_open_MPT_csv():
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mpt1, comments = MPTfileCSV(os.path.join(testdata_dir, 'bio-logic1.mpt'))
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eq_(comments, [])
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eq_(mpt1.fieldnames, ["mode", "ox/red", "error", "control changes",
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"Ns changes", "counter inc.", "time/s",
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"control/V/mA", "Ewe/V", "dq/mA.h", "P/W",
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"<I>/mA", "(Q-Qo)/mA.h", "x"])
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@raises(ValueError)
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def test_open_MPT_csv_fails_for_bad_file():
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mpt1 = MPTfileCSV(os.path.join(testdata_dir, 'bio-logic1.mpr'))
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def test_open_MPR1():
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mpr1 = MPRfile(os.path.join(testdata_dir, 'bio-logic1.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr1.startdate, date(2011, 10, 29))
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eq_(mpr1.enddate, date(2011, 10, 31))
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def test_open_MPR2():
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mpr2 = MPRfile(os.path.join(testdata_dir, 'bio-logic2.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr2.startdate, date(2012, 9, 27))
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eq_(mpr2.enddate, date(2012, 9, 27))
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def test_open_MPR3():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic3.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr.startdate, date(2013, 3, 27))
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eq_(mpr.enddate, date(2013, 3, 27))
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def test_open_MPR4():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic4.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr.startdate, date(2011, 11, 1))
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eq_(mpr.enddate, date(2011, 11, 2))
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def test_open_MPR5():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic5.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr.startdate, date(2013, 1, 28))
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eq_(mpr.enddate, date(2013, 1, 28))
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def test_open_MPR6():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic6.mpr'))
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## Check the dates as a basic test that it has been read properly
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eq_(mpr.startdate, date(2012, 9, 11))
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## no end date because no VMP LOG module
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@raises(ValueError)
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def test_open_MPR_fails_for_bad_file():
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mpr1 = MPRfile(os.path.join(testdata_dir, 'arbin1.res'))
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def timestamp_from_comments(comments):
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for line in comments:
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time_match = re.match(b'Acquisition started on : ([0-9/]+ [0-9:]+)', line)
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if time_match:
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timestamp = datetime.strptime(str(time_match.group(1), encoding='ascii'),
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'%m/%d/%Y %H:%M:%S')
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return timestamp
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raise AttributeError("No timestamp in comments")
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def assert_MPR_matches_MPT(mpr, mpt, comments):
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def assert_field_matches(fieldname, decimal):
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if fieldname in mpr.dtype.fields:
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assert_array_almost_equal(mpr.data[fieldname],
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mpt[fieldname],
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decimal=decimal)
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def assert_field_exact(fieldname):
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if fieldname in mpr.dtype.fields:
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assert_array_equal(mpr.data[fieldname], mpt[fieldname])
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assert_array_equal(mpr.data["flags"] & 0x03, mpt["mode"])
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assert_array_equal(np.array(mpr.data["flags"] & 0x04, dtype=np.bool_),
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mpt["ox/red"])
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assert_array_equal(np.array(mpr.data["flags"] & 0x08, dtype=np.bool_),
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mpt["error"])
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assert_array_equal(np.array(mpr.data["flags"] & 0x10, dtype=np.bool_),
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mpt["control changes"])
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if "Ns changes" in mpt.dtype.fields:
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assert_array_equal(np.array(mpr.data["flags"] & 0x20, dtype=np.bool_),
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mpt["Ns changes"])
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## Nothing uses the 0x40 bit of the flags
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assert_array_equal(np.array(mpr.data["flags"] & 0x80, dtype=np.bool_),
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mpt["counter inc."])
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assert_array_almost_equal(mpr.data["time/s"],
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mpt["time/s"],
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decimal=4) # 5 digits in CSV
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assert_field_matches("control/V/mA", decimal=6)
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assert_field_matches("control/V", decimal=6)
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assert_array_almost_equal(mpr.data["Ewe/V"],
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mpt["Ewe/V"],
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decimal=6) # 32 bit float precision
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assert_field_matches("dQ/mA.h", decimal=17) # 64 bit float precision
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assert_field_matches("P/W", decimal=10) # 32 bit float precision for 1.xxE-5
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assert_field_matches("I/mA", decimal=6) # 32 bit float precision
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assert_field_exact("cycle number")
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assert_field_matches("(Q-Qo)/C", decimal=6) # 32 bit float precision
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try:
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eq_(timestamp_from_comments(comments), mpr.timestamp)
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except AttributeError:
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pass
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def test_MPR1_matches_MPT1():
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mpr1 = MPRfile(os.path.join(testdata_dir, 'bio-logic1.mpr'))
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mpt1, comments = MPTfile(os.path.join(testdata_dir, 'bio-logic1.mpt'))
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assert_MPR_matches_MPT(mpr1, mpt1, comments)
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def test_MPR2_matches_MPT2():
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mpr2 = MPRfile(os.path.join(testdata_dir, 'bio-logic2.mpr'))
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mpt2, comments = MPTfile(os.path.join(testdata_dir, 'bio-logic2.mpt'))
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assert_MPR_matches_MPT(mpr2, mpt2, comments)
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## No bio-logic3.mpt file
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def test_MPR4_matches_MPT4():
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mpr4 = MPRfile(os.path.join(testdata_dir, 'bio-logic4.mpr'))
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mpt4, comments = MPTfile(os.path.join(testdata_dir, 'bio-logic4.mpt'))
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assert_MPR_matches_MPT(mpr4, mpt4, comments)
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def test_MPR5_matches_MPT5():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic5.mpr'))
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mpt, comments = MPTfile((re.sub(b'\tXXX\t', b'\t0\t', line) for line in
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open(os.path.join(testdata_dir, 'bio-logic5.mpt'),
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mode='rb')))
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assert_MPR_matches_MPT(mpr, mpt, comments)
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def test_MPR6_matches_MPT6():
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mpr = MPRfile(os.path.join(testdata_dir, 'bio-logic6.mpr'))
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mpt, comments = MPTfile(os.path.join(testdata_dir, 'bio-logic6.mpt'))
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mpr.data = mpr.data[:958] # .mpt file is incomplete
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assert_MPR_matches_MPT(mpr, mpt, comments)
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