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181 lines
6.4 KiB
Python
181 lines
6.4 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, str3 # 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(str3(time_match.group(1)),
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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.get_flag("mode"), mpt["mode"])
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assert_array_equal(mpr.get_flag("ox/red"), mpt["ox/red"])
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assert_array_equal(mpr.get_flag("error"), mpt["error"])
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assert_array_equal(mpr.get_flag("control changes"), mpt["control changes"])
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if "Ns changes" in mpt.dtype.fields:
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assert_array_equal(mpr.get_flag("Ns changes"), mpt["Ns changes"])
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## Nothing uses the 0x40 bit of the flags
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assert_array_equal(mpr.get_flag("counter inc."), 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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