update tests and workflows

.github/workflows/generate_documentation.yml

@@ -11,11 +11,15 @@ jobs:
       max-parallel: 5
 
     steps:
-    - uses: actions/checkout@v2
+    - uses: actions/checkout@v4
     - name: Set up Python 3.10
       uses: actions/setup-python@v2
       with:
         python-version: '3.10'
+    - name: set up Pandoc    
+      uses: r-lib/actions/setup-pandoc@v2
+      with:
+        pandoc-version: '3.1.11' # The pandoc version to download (if necessary) and use.
     - name: Add conda to system path
       run: |
         # $CONDA is an environment variable pointing to the root of the miniconda directory
@@ -29,9 +33,11 @@ jobs:
         pip install ./
     - name: Install Sphinx and additional dependences
       run: |
+        sudo apt install pandoc
         pip install sphinx sphinx-rtd-theme sphinx-autodoc-typehints sphinx-argparse nbsphinx renku-sphinx-theme
+     
+      - run: echo "# Test" | pandoc -t html        
     - name: Generate Documentation
-      uses: docker://pandoc/core:2.9
       run: |
         cd docs_source
         make clean

src/sparcscore/processing_test.py

@@ -35,9 +35,6 @@ def test_segment_threshold():
         labels.shape == image.shape
     ), "Output labels and input image shapes are not equal"
 
-    # Check if output has the correct dtype (int)
-    assert isinstance(labels.dtype, int), "Output label dtype is not integer"
-
     # Check if values are non-negative
     assert np.all(labels >= 0), "Output labels contain negative values"
 
@@ -54,9 +51,6 @@ def test_segment_global_threshold():
         labels.shape == image.shape
     ), "Output labels and input image shapes are not equal"
 
-    # Check if output has the correct dtype (int)
-    assert isinstance(labels.dtype, int), "Output label dtype is not integer"
-
     # Check if values are non-negative
     assert np.all(labels >= 0), "Output labels contain negative values"