Merge branch 'release/v0.4.1'

.github/workflows/python-package.yml

@@ -25,7 +25,7 @@ jobs:
 
     - name: Install dependencies
       run: |
-        pip install -U setuptools>=40.1 wheel cmake
+        pip install -U setuptools>=40.1 wheel 'cmake<3.20'
         pip install .
     
     - name: Test with bats

setup.py

@@ -5,7 +5,7 @@
 
 setup(
     name='scanpy-scripts',
-    version='0.4.0',
+    version='0.4.1',
     author='nh3',
     author_email='[email protected]',
     description='Scripts for using scanpy from the command line',
@@ -44,12 +44,12 @@
         'scanpy>=1.6.0',
         'louvain',
         'leidenalg',
-        'loompy>=2.0.0,<3.0.0',
+        'loompy',
         'MulticoreTSNE',
-        'Click',
+        'Click<8',
         'umap-learn<0.4.0',
         'harmonypy>=0.0.5',
-        'bbknn>=1.3.12',
+        'bbknn>=1.3.12,<1.5.0',
         'mnnpy>=0.1.9.5'
     ],
 )