From dbb565ff87f5278ded9efea5c90a7a44fafdee3c Mon Sep 17 00:00:00 2001 From: Malia Gehan Date: Wed, 15 May 2024 12:06:25 -0500 Subject: [PATCH] Create test_napari_join_labels.py added napari join labels tests with viewer close --- tests/test_napari_join_labels.py | 83 ++++++++++++++++++++++++++++++++ 1 file changed, 83 insertions(+) create mode 100644 tests/test_napari_join_labels.py diff --git a/tests/test_napari_join_labels.py b/tests/test_napari_join_labels.py new file mode 100644 index 0000000..f3ae04b --- /dev/null +++ b/tests/test_napari_join_labels.py @@ -0,0 +1,83 @@ +import numpy as np +from plantcv.annotate.napari_open import napari_open +from plantcv.annotate.napari_label_classes import napari_label_classes +from plantcv.plantcv import readimage +from plantcv.annotate.napari_join_labels import napari_join_labels +from plantcv.plantcv import params + + +def test_napari_join_labels(test_data): + """Test for PlantCV.Annotate""" + # Read in test data + img, _, _ = readimage(test_data.kmeans_seed_gray_img) + viewer = napari_label_classes(img, ["seed"], show=False) + labeled, _ = napari_join_labels(img, viewer) + + assert np.shape(labeled) == (576, 537) + viewer.close() + + +def test_napari_join_allclass(test_data): + """Test for PlantCV.Annotate""" + # Read in test data + img, _, _ = readimage(test_data.kmeans_seed_gray_img) + viewer = napari_open(img, show=False) + background = [(54, 143), (77, 246)] + viewer.add_points(np.array(background), symbol="o", name='background', + face_color="red", size=1) + wing = [(275, 54)] + viewer.add_points(np.array(wing), symbol="o", name='wing', + face_color="red", size=1) + seed = [(280, 218)] + viewer.add_points(np.array(seed), symbol="o", name='seed', + face_color="red", size=1) + + labeled, _ = napari_join_labels(img, viewer) + + assert np.shape(labeled) == (576, 537) + viewer.close() + + +def test_napari_join_warn(test_data): + """Test for PlantCV.Annotate""" + # Read in test data + img, _, _ = readimage(test_data.kmeans_seed_gray_img) + viewer = napari_open(img, show=False) + background = [(54, 143), (77, 246)] + viewer.add_points(np.array(background), symbol="o", name='background', + face_color="red", size=1) + wing = [(275, 54)] + viewer.add_points(np.array(wing), symbol="o", name='wing', + face_color="red", size=1) + seed = [(275, 54)] + viewer.add_points(np.array(seed), symbol="o", name='seed', + face_color="red", size=1) + + labeled, _ = napari_join_labels(img, viewer) + + assert np.shape(labeled) == (576, 537) + viewer.close() + + +def test_napari_join_print(test_data, tmpdir): + """Test for PlantCV.Annotate""" + params.debug = 'print' + cache_dir = tmpdir.mkdir("cache") + params.debug_outdir = cache_dir + # Read in test data + img, _, _ = readimage(test_data.kmeans_seed_gray_img) + viewer = napari_open(img, show=False) + background = [(54, 143), (77, 246)] + viewer.add_points(np.array(background), symbol="o", name='background', + face_color="red", size=1) + wing = [(280, 218)] + viewer.add_points(np.array(wing), symbol="o", name='wing', + face_color="red", size=1) + seed = [(275, 54)] + viewer.add_points(np.array(seed), symbol="o", name='seed', + face_color="red", size=1) + + labeled, _ = napari_join_labels(img, viewer) + + assert np.shape(labeled) == (576, 537) + viewer.close()