Use fixed version numbers in dependencies (#242)

.github/workflows/python-package-3.8.yml

@@ -0,0 +1,58 @@
+# This workflow will install Python dependencies, run tests and lint with a variety of Python versions
+# For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
+
+name: pip-install
+
+on:
+  push:
+    branches: [ main ]
+  pull_request:
+    branches: [ main ]
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+    strategy:
+      fail-fast: false
+      matrix:
+        python-version: [3.8]
+
+    steps:
+    - uses: actions/checkout@v2
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v2
+      with:
+        python-version: ${{ matrix.python-version }}
+
+    - name: Cache dependencies
+      id: myCache
+      uses: actions/cache@v2
+      with:
+        path: /opt/hostedtoolcache/Python/3.8.12/x64/lib/python3.8/site-packages
+        key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements.txt') }}
+        restore-keys: |
+          ${{ runner.os }}-pip-
+
+    - name: Install dependencies
+      if: steps.myCache.outputs.cache-hit != 'true'
+      run: |
+        python -m pip install --upgrade pip
+        python -m pip install flake8 pytest
+        if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
+
+    - name: Format the code with black
+      run: python -m black bcdi --check
+
+    - name: Lint with flake8
+      run: |
+        # stop the build if there are Python syntax errors or undefined names
+        python -m flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
+        # exit-zero treats all errors as warnings. Use the default of 88 chars
+        python -m flake8 . --count --exit-zero --max-complexity=10 --max-line-length=88 --statistics
+
+    - name: Type check with mypy
+      run: python -m mypy bcdi
+
+    - name: Test with pytest
+      run: python -m pytest

.github/workflows/python-package-3.9.yml

@@ -1,7 +1,7 @@
 # This workflow will install Python dependencies, run tests and lint with a variety of Python versions
 # For more information see: https://help.github.com/actions/language-and-framework-guides/using-python-with-github-actions
 
-name: python-package-3.9
+name: pip-install
 
 on:
   push:
@@ -38,7 +38,7 @@ jobs:
       if: steps.myCache.outputs.cache-hit != 'true'
       run: |
         python -m pip install --upgrade pip
-        python -m pip install flake8 pytest black mypy
+        python -m pip install flake8 pytest
         if [ -f requirements.txt ]; then pip install -r requirements.txt; fi
 
     - name: Format the code with black

requirements.txt

@@ -1,31 +1,31 @@
-numpy
-scipy
-scikit-image
-matplotlib
-hdf5plugin
-h5py
-traits
-importlib_resources
-xrayutilities
-vtk
-fabio
-silx
-lmfit
-moviepy
-pillow
-tables
-pandas
-pyqt5
-ipywidgets
-pyyaml
-black
-coverage
-doit
-mypy
-pycodestyle
-pydocstyle
-pyfakefs
-sphinx
-sphinxcontrib-mermaid
-twine
-wheel
+black==22.1.0
+coverage==6.3.2
+doit==0.34.2
+fabio==0.13.0
+h5py==3.6.0
+hdf5plugin==3.2.0
+importlib-resources==5.4.0
+ipywidgets==7.7.0
+lmfit==1.0.3
+matplotlib==3.5.1
+moviepy==1.0.3
+mypy==0.941
+numpy==1.22.3
+pandas==1.4.1
+Pillow==9.0.1
+pycodestyle==2.8.0
+pydocstyle==6.1.1
+pyfakefs==4.5.6
+PyQt5==5.15.6
+PyYAML==6.0
+scikit-image==0.19.2
+scipy==1.8.0
+silx==1.0.0
+Sphinx==4.4.0
+sphinxcontrib-mermaid==0.7.1
+tables==3.7.0
+traits==6.3.2
+twine==3.8.0
+vtk==9.1.0
+wheel==0.37.1
+xrayutilities==1.7.3

setup.py

@@ -127,44 +127,44 @@
          6. Creating figures for publication using templates.""",
     url="https://github.com/carnisj/bcdi",
     project_urls={"Documentation": "https://bcdi.readthedocs.io/en/latest/"},
-    python_requires=">=3.6*, <3.10",
+    python_requires="==3.6*, <3.10",
     install_requires=[
-        "numpy",
-        "scipy",
-        "scikit-image",
-        "matplotlib",
-        "hdf5plugin",
-        "h5py",
-        "traits",
-        "vtk",
-        "importlib_resources",
-        "xrayutilities",
-        "fabio",
-        "silx",
-        "pyyaml",
-        "tables",
-        "lmfit",
-        "moviepy",
-        "pillow",
-        "pandas",
-        "pyqt5",
-        "ipywidgets",
+        "fabio==0.13.0",
+        "hdf5plugin==3.2.0",
+        "h5py==3.6.0",
+        "importlib-resources==5.4.0",
+        "ipywidgets==7.7.0",
+        "lmfit==1.0.3",
+        "matplotlib==3.5.1",
+        "moviepy==1.0.3",
+        "numpy==1.22.3",
+        "pandas==1.4.1",
+        "pillow==9.0.1",
+        "pyqt5==5.15.6",
+        "pyyaml==6.0",
+        "scikit-image==0.19.2",
+        "scipy==1.8.0",
+        "silx==1.0.0",
+        "tables==3.7.0",
+        "traits==6.3.2",
+        "vtk==9.1.0",
+        "xrayutilities==1.7.3",
     ],
     extras_require={
         "doc": [
-            "sphinx",
-            "sphinxcontrib-mermaid",
+            "sphinx==4.4.0",
+            "sphinxcontrib-mermaid==0.7.1",
         ],
         "dev": [
-            "black",
-            "coverage",
-            "doit",
-            "mypy",
-            "pycodestyle",
-            "pydocstyle",
-            "pyfakefs",
-            "twine",
-            "wheel",
+            "black==22.1.0",
+            "coverage==6.3.2",
+            "doit==0.34.2",
+            "mypy==0.941",
+            "pycodestyle==2.8.0",
+            "pydocstyle==6.1.1",
+            "pyfakefs==4.5.6",
+            "twine==3.8.0",
+            "wheel==0.37.1",
         ],
     },
     classifiers=[
@@ -183,8 +183,6 @@
         # that you indicate whether you support Python 2, Python 3 or both.
         # These classifiers are *not* checked by 'pip install'. See instead
         # 'python_requires' below.
-        "Programming Language :: Python :: 3.6",
-        "Programming Language :: Python :: 3.7",
         "Programming Language :: Python :: 3.8",
         "Programming Language :: Python :: 3.9",
         "Operating System :: OS Independent",