def test_run_dnadiff(self):
"""Test single dnadiff run"""
dnadiff_dist_matrix.run_dnadiff(
ospj(DATA_PATH, "sample0_gt1000_bin0.fa"),
ospj(DATA_PATH, "sample0_gt1000_bin1.fa"),
ospj(TMP_BASENAME_DIR, "out"))
ok_(os.path.exists(ospj(TMP_BASENAME_DIR, "out.report")))
def test_mummer_report_class(self):
"""Test mummer report class"""
dnadiff_dist_matrix.run_dnadiff(ospj(DATA_PATH,
"sample0_gt1000_bin0.fa"), ospj(DATA_PATH,
"sample0_gt1000_bin1.fa"), ospj(TMP_BASENAME_DIR, "out"))
ok_(os.path.exists(ospj(TMP_BASENAME_DIR, "out.report")))
mumr = dnadiff_dist_matrix.MUMmerReport(ospj(TMP_BASENAME_DIR,
"out.report"))
assert_equal(mumr.tot_bases[0], 3213)
assert_equal(mumr.tot_bases[1], 43514)
assert_equal(mumr.aligned_bases[0], 0)
assert_equal(mumr.aligned_bases[1], 0)
def test_mummer_report_class(self):
"""Test mummer report class"""
dnadiff_dist_matrix.run_dnadiff(
ospj(DATA_PATH, "sample0_gt1000_bin0.fa"),
ospj(DATA_PATH, "sample0_gt1000_bin1.fa"),
ospj(TMP_BASENAME_DIR, "out"))
ok_(os.path.exists(ospj(TMP_BASENAME_DIR, "out.report")))
mumr = dnadiff_dist_matrix.MUMmerReport(
ospj(TMP_BASENAME_DIR, "out.report"))
assert_equal(mumr.tot_bases[0], 3213)
assert_equal(mumr.tot_bases[1], 43514)
assert_equal(mumr.aligned_bases[0], 0)
assert_equal(mumr.aligned_bases[1], 0)
def test_run_dnadiff(self):
"""Test single dnadiff run"""
dnadiff_dist_matrix.run_dnadiff(ospj(DATA_PATH,
"sample0_gt1000_bin0.fa"), ospj(DATA_PATH,
"sample0_gt1000_bin1.fa"), ospj(TMP_BASENAME_DIR, "out"))
ok_(os.path.exists(ospj(TMP_BASENAME_DIR, "out.report")))