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segmenter: add contour export

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(cherry picked from commit 9329cbf8c9fd6a2e3fd5473896a8d1902acfe627)
This commit is contained in:
Romain Bazile 2021-06-02 18:34:18 +02:00 committed by Romain Bazile
parent 6675b2ebfc
commit ef59fc4ee1
1 changed files with 14 additions and 16 deletions
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30
scripts/planktoscope/segmenter/__init__.py
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@ -515,7 +515,6 @@ class SegmenterProcess(multiprocessing.Process):
else:
self.__global_metadata.update({"objects": [object_metadata]})
# TODO make the TSV for ecotaxa
if self.__save_debug_img:
if object_number:
for region in regionprops_filtered:
@ -526,26 +525,25 @@ class SegmenterProcess(multiprocessing.Process):
cv2.MARKER_CROSS,
)
tagged_image = cv2.rectangle(
img,
tagged_image,
pt1=region.bbox[-3:-5:-1],
pt2=region.bbox[-1:-3:-1],
color=(150, 0, 200),
thickness=1,
)
# contours = [region.bbox for region in regionprops_filtered]
# for contour in contours:
# tagged_image = cv2.rectangle(
# img, pt1=(contours[0][1],contours[0][0]), pt2=(contours[0][3],contours[0][2]), color=(0, 0, 255), thickness=2
# )
# contours = [region.coords for region in regionprops_filtered]
# for contour in contours:
# tagged_image = cv2.drawContours(
# img_erode_2, contour, -1, color=(0, 0, 255), thickness=2
# )
# cv2.imshow("tagged_image", tagged_image.astype("uint8"))
# cv2.waitKey(0)
contours, hierarchy = cv2.findContours(
np.uint8(region.image),
mode=cv2.RETR_TREE, # RETR_FLOODFILL or RETR_EXTERNAL
method=cv2.CHAIN_APPROX_NONE,
)
tagged_image = cv2.drawContours(
tagged_image,
contours,
-1,
(238, 130, 238),
thickness=1,
offset=(region.bbox[1], region.bbox[0]),
)
self._save_image(
tagged_image,
os.path.join(self.__working_debug_path, "tagged.jpg"),