Merge pull request #53 from mitre/develop

Merge develop to main

Author: dchud

.github/workflows/python-package.yml

@@ -0,0 +1,43 @@
+# 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
+
+on: [push, pull_request]
+
+jobs:
+  build:
+    runs-on: ${{ matrix.os }}
+
+    strategy:
+      fail-fast: false
+      matrix:
+        os: [ubuntu-latest, macos-latest, windows-latest]
+        python-version: [3.7, 3.8, 3.9]
+        exclude:
+          - os: macos-latest
+            python-version: [3.7]
+          - os: windows-latest
+            python-version: [3.7]
+
+    steps:
+      - uses: actions/checkout@v2
+      - name: Set up Python ${{ matrix.python-version }}
+        uses: actions/setup-python@v2
+        with:
+          python-version: ${{ matrix.python-version }}
+      - name: Install dependencies
+        run: |
+          python3 -m pip install --upgrade pip
+          python3 -m pip install flake8
+          python3 -m pip install -r requirements.txt
+      - name: Lint with flake8
+        run: |
+          # Note: ignore .py versions of notebooks; too many formatting issues
+          # stop the build if there are Python syntax errors or undefined names
+          flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics --exclude=GrowthViz-*.py
+          # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+          flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics --exclude=GrowthViz-*.py
+      - name: Test with unittest
+        run: |
+          python3 -m unittest

.gitignore

@@ -135,4 +135,14 @@ dmypy.json
 .pytype/
 
 # Cython debug symbols
-cython_debug/
+cython_debug/
+
+# VSCode environment
+.history
+.vscode
+
+# Other local additions
+*.swo
+*.swp
+.DS_Store
+output

Dockerfile

@@ -1,21 +1,26 @@
-FROM jupyter/minimal-notebook
+FROM jupyter/scipy-notebook
 
-MAINTAINER [email protected]
+LABEL maintainer="Robi Scalfani <[email protected]>"
 
-WORKDIR /usr/src/app
-
-RUN pip install pandas
-RUN pip install matplotlib
-RUN pip install ipywidgets
-RUN pip install seaborn
-RUN pip install qgrid
-
-COPY . ./
 COPY LICENSE /LICENSE
 COPY README.md /README.md
 
+# Switch to root; minimal-notebook switches away, so we have to switch back
+# https://github.com/jupyter/docker-stacks/blob/master/minimal-notebook/Dockerfile
+USER root
+
+WORKDIR /app
+COPY . /app
+
+RUN pip install -r requirements.txt
+
+RUN chown -R jovyan /app
+
 EXPOSE 8888
 
 RUN jupyter nbextension enable --py --sys-prefix qgrid
 
-CMD jupyter notebook
+# Switch back to regular user
+USER jovyan
+
+CMD jupyter notebook