def test_mntd(self):
"""Test if mean nearest taxon distance (mntd) is calculated correctly.
Notes:
The formula used is found Webb et al. 2002. Paper available at:
http://www.annualreviews.org/doi/pdf/10.1146/annurev.ecolsys.33.010802.150448
"""
distmat = array([[0.0, 0.4, 2.0, 1.3], [0.4, 0.0, 1.6, 0.2], [2.0, 1.6, 0.0, 1.1], [1.3, 0.2, 1.1, 0.0]])
self.assertFloatEqual(1.9 / 4.0, mntd(distmat))
def test_mntd(self):
"""Test if mean nearest taxon distance (mntd) is calculated correctly.
Notes:
The formula used is found Webb et al. 2002. Paper available at:
http://www.annualreviews.org/doi/pdf/10.1146/annurev.ecolsys.33.010802.150448
"""
distmat = array([[0.0, 0.4, 2.0, 1.3], [0.4, 0.0, 1.6, 0.2],
[2.0, 1.6, 0.0, 1.1], [1.3, 0.2, 1.1, 0.0]])
assert_almost_equal(1.9 / 4., mntd(distmat))
def test_mntd(self):
"""test mntd walks through input matrices correctly"""
# define datamtx
datamtx = array([[0.0, 0.4, 2.0, 1.3], [0.4, 0.0, 1.6, 0.2],
[2.0, 1.6, 0.0, 1.1], [1.3, 0.2, 1.1, 0.0]])
expected_out_m = 1.9 / 4.
actual_out_m = mntd(datamtx)
self.assertFloatEqual(expected_out_m, actual_out_m)
def test_mntd(self):
"""test mntd walks through input matrices correctly"""
# define datamtx
datamtx = array([[0.0, 0.4, 2.0, 1.3],
[0.4, 0.0, 1.6, 0.2],
[2.0, 1.6, 0.0, 1.1],
[1.3, 0.2, 1.1, 0.0]])
expected_out_m = 1.9/4.
actual_out_m = mntd(datamtx)
self.assertFloatEqual(expected_out_m, actual_out_m)