def test_legacy_anib_mpl(legacy_anib_mpl_namespace):
r"""Use legacy script to run ANIb (mpl output).
average_nucleotide_identity.py \
-l test_ANIb.log \
-i tests/test_output/legacy_scripts/C_blochmannia \
-o tests/test_output/legacy_scripts/ANIb_mpl \
-g --gmethod mpl --gformat pdf,png \
-f --jobprefix ANI
"""
average_nucleotide_identity.run_main(legacy_anib_mpl_namespace)
def test_legacy_anim_mpl(legacy_anim_mpl_namespace):
r"""Use legacy script to run ANIm (mpl output).
average_nucleotide_identity.py \
-l test_ANIm.log \
-i tests/fixtures/legacy/ANI_input \
-o tests/test_output/legacy_scripts/ANIm_mpl \
-g --gmethod mpl --gformat pdf,png \
-f --jobprefix ANI
"""
average_nucleotide_identity.run_main(legacy_anim_mpl_namespace)
def test_legacy_anib_mpl(self):
r"""Use legacy script to run ANIb (mpl output).
average_nucleotide_identity.py \
-l test_ANIb.log \
-i tests/test_output/legacy_scripts/C_blochmannia \
-o tests/test_output/legacy_scripts/ANIb_mpl \
-g --gmethod mpl --gformat pdf,png \
-f --jobprefix ANI
"""
args = self.argsdict["anib_mpl"]
average_nucleotide_identity.run_main(args, self.logger)
self.assertDirsEqual(args.outdirname,
self.testdirs.tgtdir / args.outdirname.name)
def test_legacy_anim_seaborn(self):
r"""Use legacy script to run ANIm (seaborn output).
average_nucleotide_identity.py \
-l test_ANIm.log \
-i tests/test_output/legacy_scripts/C_blochmannia \
-o tests/test_output/legacy_scripts/ANIm_seaborn \
-g --gmethod seaborn --gformat pdf,png \
-f --jobprefix ANI
"""
args = self.argsdict["anim_seaborn"]
average_nucleotide_identity.run_main(args, self.logger)
self.assertDirsEqual(
args.outdirname, # pylint: disable=no-member
self.testdirs.tgtdir / args.outdirname.name, # pylint: disable=no-member
)
def test_legacy_tetra_mpl(legacy_tetra_mpl_namespace):
r"""Use legacy script to run TETRA (mpl output)."""
average_nucleotide_identity.run_main(legacy_tetra_mpl_namespace)
def test_legacy_tetra_sns(legacy_tetra_sns_namespace):
r"""Use legacy script to run TETRA (seaborn output)."""
average_nucleotide_identity.run_main(legacy_tetra_sns_namespace)
def test_legacy_tetra_mpl(self):
r"""Use legacy script to run TETRA (mpl output)."""
args = self.argsdict["tetra_mpl"]
average_nucleotide_identity.run_main(args, self.logger)
self.assertDirsEqual(args.outdirname,
self.testdirs.tgtdir / args.outdirname.name)