def test_segmap_from_classified_fails():
"""Test the segmap_from_classified method."""
data = dh.get_expected_morpheus_output()
h, _, _, _ = example.get_sample()
mask = np.zeros_like(h, dtype=np.int)
mask[5:-5, 5:-5] = 1
with pytest.raises(ValueError):
Classifier.segmap_from_classified(data, h, mask=mask, bkg_src_threshold=1.0)
def test_segmap_from_classified():
"""Test the segmap_from_classified method."""
data = dh.get_expected_morpheus_output()
h, _, _, _ = example.get_sample()
mask = np.zeros_like(h, dtype=np.int)
mask[5:-5, 5:-5] = 1
expected_segmap = dh.get_expected_segmap()["segmap"]
actual_segmap = Classifier.segmap_from_classified(data, h, mask=mask)
np.testing.assert_array_equal(expected_segmap, actual_segmap)
def main():
args = _parse_args(sys.argv[1:])
if args.action == "None":
Classifier.classify(
h=args.h,
j=args.j,
v=args.v,
z=args.z,
batch_size=args.batch_size,
out_dir=args.out_dir,
gpus=args.gpus,
cpus=args.cpus,
)
elif args.action == "catalog":
classified = Classifier.classify(
h=args.h,
j=args.j,
v=args.v,
z=args.z,
batch_size=args.batch_size,
out_dir=args.out_dir,
gpus=args.gpus,
cpus=args.cpus,
)
segmap = Classifier.segmap_from_classified(classified,
args.h,
out_dir=args.out_dir)
Classifier.catalog_from_classified(
classified,
args.h,
segmap,
out_file=os.path.join(args.out_dir, "colorized.png"),
)
elif args.action == "segmap":
classified = Classifier.classify(
h=args.h,
j=args.j,
v=args.v,
z=args.z,
batch_size=args.batch_size,
out_dir=args.out_dir,
gpus=args.gpus,
cpus=args.cpus,
)
Classifier.segmap_from_classified(classified,
args.h,
out_dir=args.out_dir)
elif args.action == "colorize":
classified = Classifier.classify(
h=args.h,
j=args.j,
v=args.v,
z=args.z,
batch_size=args.batch_size,
out_dir=args.out_dir,
gpus=args.gpus,
cpus=args.cpus,
)
Classifier.colorize_classified(classified, out_dir=args.out_dir)
elif args.action == "all":
classified = Classifier.classify(
h=args.h,
j=args.j,
v=args.v,
z=args.z,
batch_size=args.batch_size,
out_dir=args.out_dir,
gpus=args.gpus,
cpus=args.cpus,
)
segmap = Classifier.segmap_from_classified(classified,
args.h,
out_dir=args.out_dir)
Classifier.catalog_from_classified(
classified,
args.h,
segmap,
out_file=os.path.join(args.out_dir, "colorized.png"),
)
Classifier.colorize_classified(classified, out_dir=args.out_dir)