Add CalculateInstanceSegmentationMap Transform (#5173)

Fixes #5310 .

### Description
Add a post transform to process NP branch output(an output branch in
HoVerNet) which turns the probability map from the network into the
instance segmentation result.


### Types of changes
<!--- Put an `x` in all the boxes that apply, and remove the not
applicable items -->
- [x] Non-breaking change (fix or new feature that would not break
existing functionality).
- [x] New tests added to cover the changes.
- [x] Integration tests passed locally by running `./runtests.sh -f -u
--net --coverage`.
- [x] Quick tests passed locally by running `./runtests.sh --quick
--unittests --disttests`.
- [x] In-line docstrings updated.
- [x] Documentation updated, tested `make html` command in the `docs/`
folder.

Signed-off-by: KumoLiu <yunl@nvidia.com>
Co-authored-by: pre-commit-ci[bot] <66853113+pre-commit-ci[bot]@users.noreply.github.com>
Co-authored-by: Behrooz Hashemian <3968947+drbeh@users.noreply.github.com>
Co-authored-by: Nic Ma <nma@nvidia.com>

Author: 4 people

docs/source/apps.rst

@@ -130,6 +130,30 @@ Applications
 .. autoclass:: TileOnGridd
     :members:
 
+.. automodule:: monai.apps.pathology.transforms.post.array
+.. autoclass:: Watershed
+    :members:
+.. autoclass:: GenerateWatershedMask
+    :members:
+.. autoclass:: GenerateInstanceBorder
+    :members:
+.. autoclass:: GenerateDistanceMap
+    :members:
+.. autoclass:: GenerateWatershedMarkers
+    :members:
+
+.. automodule:: monai.apps.pathology.transforms.post.dictionary
+.. autoclass:: Watershedd
+    :members:
+.. autoclass:: GenerateWatershedMaskd
+    :members:
+.. autoclass:: GenerateInstanceBorderd
+    :members:
+.. autoclass:: GenerateDistanceMapd
+    :members:
+.. autoclass:: GenerateWatershedMarkersd
+    :members:
+
 `Detection`
 -----------
 

monai/apps/pathology/transforms/__init__.py

@@ -9,6 +9,30 @@
 # See the License for the specific language governing permissions and
 # limitations under the License.
 
+from .post.array import (
+    GenerateDistanceMap,
+    GenerateInstanceBorder,
+    GenerateWatershedMarkers,
+    GenerateWatershedMask,
+    Watershed,
+)
+from .post.dictionary import (
+    GenerateDistanceMapD,
+    GenerateDistanceMapd,
+    GenerateDistanceMapDict,
+    GenerateInstanceBorderD,
+    GenerateInstanceBorderd,
+    GenerateInstanceBorderDict,
+    GenerateWatershedMarkersD,
+    GenerateWatershedMarkersd,
+    GenerateWatershedMarkersDict,
+    GenerateWatershedMaskD,
+    GenerateWatershedMaskd,
+    GenerateWatershedMaskDict,
+    WatershedD,
+    Watershedd,
+    WatershedDict,
+)
 from .spatial.array import SplitOnGrid, TileOnGrid
 from .spatial.dictionary import SplitOnGridd, SplitOnGridD, SplitOnGridDict, TileOnGridd, TileOnGridD, TileOnGridDict
 from .stain.array import ExtractHEStains, NormalizeHEStains

monai/apps/pathology/transforms/post/__init__.py

@@ -0,0 +1,35 @@
+# Copyright (c) MONAI Consortium
+# Licensed under the Apache License, Version 2.0 (the "License");
+# you may not use this file except in compliance with the License.
+# You may obtain a copy of the License at
+#     http://www.apache.org/licenses/LICENSE-2.0
+# Unless required by applicable law or agreed to in writing, software
+# distributed under the License is distributed on an "AS IS" BASIS,
+# WITHOUT WARRANTIES OR CONDITIONS OF ANY KIND, either express or implied.
+# See the License for the specific language governing permissions and
+# limitations under the License.
+
+from .array import (
+    GenerateDistanceMap,
+    GenerateInstanceBorder,
+    GenerateWatershedMarkers,
+    GenerateWatershedMask,
+    Watershed,
+)
+from .dictionary import (
+    GenerateDistanceMapD,
+    GenerateDistanceMapd,
+    GenerateDistanceMapDict,
+    GenerateInstanceBorderD,
+    GenerateInstanceBorderd,
+    GenerateInstanceBorderDict,
+    GenerateWatershedMarkersD,
+    GenerateWatershedMarkersd,
+    GenerateWatershedMarkersDict,
+    GenerateWatershedMaskD,
+    GenerateWatershedMaskd,
+    GenerateWatershedMaskDict,
+    WatershedD,
+    Watershedd,
+    WatershedDict,
+)