fix path backslashes (#17)

* Added test autopipeline and modalities, solved some autopipeline bugs, read_dicom_series and pet now supports series_id

* PT/RTDOSE metadata to csv

* fixed some bugs in autopipeline.py

* now the pipeline saves on exit

* deleted data

* now checks for existing subject id

* uncommented one line pytest

* uncommented one line pytest

* Added dataset class which can load from nrrds or directly from the dataset and convert to pytorch dataset

* bug fixes_1.0

* test and autopipe fixed

* bug fixes 2

* bug fixes 2

* added visualizations and some more bug fixes

* fixed bugs regarding multiple connections, saving of metadata and loading of metadata

* small bug fix

* added demo.py

* Changed dataset class returns

* fix conflicts

* fixed test autopipe

* fix path backslash issues

Co-authored-by: Vishwesh <vishweshramanathan@gmail.com>

imgtools/modules/datagraph.py

@@ -89,7 +89,7 @@ def visualize_graph(self):
         """
         Generates visualization using Pyviz, a wrapper around visJS. The visualization can be found at datanet.html
         """
-        from pyvis.network import Network
+        from pyvis.network import Network # type: ignore (PyLance)
         print("Generating visualizations...")
         data_net = Network(height='100%', width='100%', bgcolor='#222222', font_color='white')
 

tests/test_autopipe.py

@@ -28,7 +28,7 @@ def dataset_path():
     output_path = pathlib.Path(os.path.join(curr_path, 'tests'))
     return quebec_path.as_posix(), output_path.as_posix()
 
-# @pytest.mark.parametrize("modalities",["PT","CT,RTDOSE","CT,RTSTRUCT,RTDOSE","CT,RTSTRUCT,RTDOSE,PT"])
+# @pytest.mark.parametrize("modalities",["PT", "CT,RTSTRUCT", "CT,RTDOSE", "CT,PT,RTDOSE", "CT,RTSTRUCT,RTDOSE", "CT,RTSTRUCT,RTDOSE,PT"])
 @pytest.mark.parametrize("modalities", ["CT,PT,RTDOSE"])
 def test_pipeline(dataset_path, modalities):
     input_path, output_path = dataset_path