Merge branch 'release/1.1.0'

.coveragerc

@@ -0,0 +1,28 @@
+# .coveragerc to control coverage.py
+[run]
+branch = True
+source = dadpy
+# omit = bad_file.py
+
+[paths]
+source =
+    src/
+    */site-packages/
+
+[report]
+# Regexes for lines to exclude from consideration
+exclude_lines =
+    # Have to re-enable the standard pragma
+    pragma: no cover
+
+    # Don't complain about missing debug-only code:
+    def __repr__
+    if self\.debug
+
+    # Don't complain if tests don't hit defensive assertion code:
+    raise AssertionError
+    raise NotImplementedError
+
+    # Don't complain if non-runnable code isn't run:
+    if 0:
+    if __name__ == .__main__.:

.devcontainer/Dockerfile

@@ -0,0 +1,20 @@
+# [Choice] Python version: 3, 3.9, 3.8, 3.7, 3.6
+ARG VARIANT=3.7
+FROM mcr.microsoft.com/vscode/devcontainers/python:${VARIANT}
+
+# [Option] Install Node.js
+ARG INSTALL_NODE="true"
+ARG NODE_VERSION="lts/*"
+RUN if [ "${INSTALL_NODE}" = "true" ]; then su vscode -c "umask 0002 && . /usr/local/share/nvm/nvm.sh && nvm install ${NODE_VERSION} 2>&1"; fi
+
+# [Optional] If your pip requirements rarely change, uncomment this section to add them to the image.
+# COPY requirements.txt /tmp/pip-tmp/
+# RUN pip3 --disable-pip-version-check --no-cache-dir install -r /tmp/pip-tmp/requirements.txt \
+#    && rm -rf /tmp/pip-tmp
+
+# [Optional] Uncomment this section to install additional OS packages.
+# RUN apt-get update && export DEBIAN_FRONTEND=noninteractive \
+#     && apt-get -y install --no-install-recommends <your-package-list-here>
+
+# [Optional] Uncomment this line to install global node packages.
+# RUN su vscode -c "source /usr/local/share/nvm/nvm.sh && npm install -g <your-package-here>" 2>&1

.devcontainer/devcontainer.json

@@ -0,0 +1,47 @@
+{
+    "name": "Python 3",
+    "build": {
+        "dockerfile": "Dockerfile",
+        "context": "..",
+        "args": {
+            // Update 'VARIANT' to pick a Python version: 3, 3.6, 3.7, 3.8, 3.9
+            "VARIANT": "3.8",
+            // Options
+            "INSTALL_NODE": "false",
+            "NODE_VERSION": "lts/*"
+        }
+    },
+    "containerEnv": {
+        "GITHUB_TOKEN": "${localEnv:GITHUB_TOKEN}",
+        "GITHUB_USER": "${localEnv:GITHUB_USER}"
+    },
+    "workspaceFolder": "/dadpy",
+    "workspaceMount": "src=dadpy,dst=/dadpy,type=volume,volume-driver=local",
+    // Set *default* container specific settings.json values on container create.
+    "settings": {
+        "python.pythonPath": "/usr/local/bin/python",
+        "python.languageServer": "Pylance",
+        "python.linting.enabled": true,
+        "python.linting.pylintEnabled": true,
+        "python.formatting.autopep8Path": "/usr/local/py-utils/bin/autopep8",
+        "python.formatting.blackPath": "/usr/local/py-utils/bin/black",
+        "python.formatting.yapfPath": "/usr/local/py-utils/bin/yapf",
+        "python.linting.banditPath": "/usr/local/py-utils/bin/bandit",
+        "python.linting.flake8Path": "/usr/local/py-utils/bin/flake8",
+        "python.linting.mypyPath": "/usr/local/py-utils/bin/mypy",
+        "python.linting.pycodestylePath": "/usr/local/py-utils/bin/pycodestyle",
+        "python.linting.pydocstylePath": "/usr/local/py-utils/bin/pydocstyle",
+        "python.linting.pylintPath": "/usr/local/py-utils/bin/pylint"
+    },
+    // Add the IDs of extensions you want installed when the container is created.
+    "extensions": [
+        "ms-python.python",
+        "ms-python.vscode-pylance"
+    ],
+    // Use 'forwardPorts' to make a list of ports inside the container available locally.
+    // "forwardPorts": [],
+    // Use 'postCreateCommand' to run commands after the container is created.
+    "postCreateCommand": "pip3 install --user -r requirements.txt -r dev-requirements.txt",
+    // Comment out connect as root instead. More info: https://aka.ms/vscode-remote/containers/non-root.
+    // "remoteUser": "vscode"
+}

.github/config.yml

@@ -0,0 +1,25 @@
+# Configurations for todo: https://probot.github.io/apps/todo/
+# Automatically add issues from @todo with @body
+# /**
+#  * @todo What needs to be done
+#  * @body How to do it.
+# */
+
+# https://github.com/behaviorbot/welcome
+newIssueWelcomeComment: >
+  Thank you for raising this issue. We will try and get back to you as soon as possible.
+
+  Be sure to star ✨ the repository for a priority response!
+
+  Please make sure you have given us as much context as possible.
+
+
+newPRWelcomeComment: >
+  Thank you for submitting a pull request.
+
+  Please make sure you have followed our contributing guidelines in CONTRIBUTING.md. We will review it as soon as possible.
+
+  Be sure to star ✨ the repository.
+
+firstPRMergeComment: >
+  Congrats on merging your first pull request! 🎉🎉🎉

.github/dependabot.yml

@@ -0,0 +1,12 @@
+version: 2
+updates:
+  - package-ecosystem: pip
+    directory: "/"
+    schedule:
+      interval: "weekly"
+    # open-pull-requests-limit: 10
+
+  - package-ecosystem: "github-actions"
+    directory: "/"
+    schedule:
+      interval: "weekly"

.github/workflows/bump.yml

@@ -0,0 +1,27 @@
+name: Generate changelog
+
+on:
+  push:
+    branches:
+      - "release/**"
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+    timeout-minutes: 5
+
+    steps:
+    - name: Checkout Latest Commit
+      uses: actions/checkout@v2
+
+    - name: Generate changelog
+      uses: charmixer/auto-changelog-action@v1
+      with:
+        token: ${{ secrets.github_token }}
+
+    - name: Commit changes
+      uses: EndBug/add-and-commit@v7
+      with:
+        default_author: github_actions
+        add: '*.md'

.github/workflows/docs.yml

@@ -0,0 +1,29 @@
+name: Generate and puplish gh-pages
+# https://docs.github.com/en/actions/guides/building-and-testing-python
+# https://packaging.python.org/guides/publishing-package-distribution-releases-using-github-actions-ci-cd-workflows/
+on:
+  release:
+    types: [published]
+
+jobs:
+  deploy:
+    runs-on: ubuntu-latest
+    timeout-minutes: 15
+    steps:
+    - uses: actions/checkout@v2.3.4
+    - name: Set up Python
+      uses: actions/setup-python@v2.2.2
+      with:
+        python-version: '3.8'
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install -r requirements.txt -r dev-requirements.txt
+    - name: Create docs
+      run: |
+        make -C docs/ html
+    - name: Deploy Docs 🚀
+      uses: JamesIves/github-pages-deploy-action@4.1.4
+      with:
+        branch: gh-pages # The branch the action should deploy to.
+        folder: docs/_build/html # The folder the action should deploy.

.github/workflows/publish.yml

@@ -0,0 +1,30 @@
+name: Upload Python Package to PyPi
+# https://docs.github.com/en/actions/guides/building-and-testing-python
+# https://packaging.python.org/guides/publishing-package-distribution-releases-using-github-actions-ci-cd-workflows/
+on:
+  release:
+    types: [published]
+
+jobs:
+  deploy:
+    runs-on: ubuntu-latest
+    timeout-minutes: 20
+    steps:
+    - uses: actions/checkout@v2.3.4
+    - name: Set up Python
+      uses: actions/setup-python@v2.2.2
+      with:
+        python-version: '3.8'
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install -r dev-requirements.txt
+    - name: Build and publish
+      run: |
+        python setup.py bdist_wheel
+    - name: Publish distribution 📦 to PyPI
+      if: startsWith(github.ref, 'refs/tags')
+      uses: pypa/gh-action-pypi-publish@master
+      with:
+        user: __token__
+        password: ${{ secrets.PYPI_API_TOKEN }}

.github/workflows/pytest.yml

@@ -0,0 +1,33 @@
+name: Python Test
+
+on:
+  push:
+    branches:
+      - develop
+  pull_request:
+    branches:
+      - master
+      - develop
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+    strategy:
+      max-parallel: 4
+      matrix:
+        python-version: [3.7]
+
+    steps:
+    - uses: actions/checkout@v2.3.4
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v2.2.2
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install -r dev-requirements.txt -r requirements.txt
+    - name: Test with pytest
+      run: |
+        pytest

.github/workflows/tox.yml

@@ -0,0 +1,29 @@
+name: Python Test
+
+on:
+  push:
+    branches:
+      - master
+
+jobs:
+  build:
+
+    runs-on: ubuntu-latest
+    strategy:
+      max-parallel: 4
+      matrix:
+        python-version: [3.8]
+
+    steps:
+    - uses: actions/checkout@v2.3.4
+    - name: Set up Python ${{ matrix.python-version }}
+      uses: actions/setup-python@v2.2.2
+      with:
+        python-version: ${{ matrix.python-version }}
+    - name: Install dependencies
+      run: |
+        python -m pip install --upgrade pip
+        pip install -r dev-requirements.txt -r requirements.txt
+    - name: Test with tox
+      run: |
+        tox

.gitignore

@@ -20,6 +20,7 @@ __pycache__/*
 .pydevproject
 .settings
 .idea
+.vscode
 tags
 
 # Package files
@@ -31,8 +32,9 @@ tags
 # Unittest and coverage
 htmlcov/*
 .coverage
+.coverage.*
 .tox
-junit.xml
+junit*.xml
 coverage.xml
 .pytest_cache/
 
@@ -48,9 +50,7 @@ MANIFEST
 
 # Per-project virtualenvs
 .venv*/
-.vscode
-cdm6.sqlite
-*.sav
-*.csv
-*.fth
-.env
+.conda*/
+
+# env files
+.env

.readthedocs.yml

@@ -0,0 +1,22 @@
+# Read the Docs configuration file
+# See https://docs.readthedocs.io/en/stable/config-file/v2.html for details
+
+# Required
+version: 2
+
+# Build documentation in the docs/ directory with Sphinx
+sphinx:
+  configuration: docs/conf.py
+
+# Build documentation with MkDocs
+#mkdocs:
+#  configuration: mkdocs.yml
+
+# Optionally build your docs in additional formats such as PDF
+formats:
+  - pdf
+
+python:
+  version: 3.8
+  install:
+    - requirements: docs/requirements.txt

AUTHORS.md

@@ -0,0 +1,3 @@
+# Contributors
+
+* Bell Eapen <github_public@gulfdoctor.net>

CHANGELOG.md

@@ -0,0 +1,17 @@
+# Changelog
+
+## [Unreleased](https://github.com/dermatologist/dadpy/tree/HEAD)
+
+[Full Changelog](https://github.com/dermatologist/dadpy/compare/1.0.0...HEAD)
+
+**Closed issues:**
+
+- Grab this if you have a health analytics background! [\#1](https://github.com/dermatologist/dadpy/issues/1)
+
+## [1.0.0](https://github.com/dermatologist/dadpy/tree/1.0.0) (2020-06-01)
+
+[Full Changelog](https://github.com/dermatologist/dadpy/compare/413e398ebf5467f176721c7ce4221beeb31ed5b6...1.0.0)
+
+
+
+\* *This Changelog was automatically generated by [github_changelog_generator](https://github.com/github-changelog-generator/github-changelog-generator)*

CONTRIBUTING.md

@@ -15,7 +15,7 @@
         cd dadpy
         git remote add upstream https://github.com/E-Health/dadpy.git
 
-2. Checkout out a new local branch based on your master and update it to the latest (TRUNK-123 is the branch name, You can name it whatever you want. Try to give it a meaningful name. If you are fixing an issue, please include the issue #).
+2. Checkout out a new local branch based on your master and update it to the latest (BRANCH-123 is the branch name, You can name it whatever you want. Try to give it a meaningful name. If you are fixing an issue, please include the issue #).
 
         git checkout -b BRANCH-123 develop
         git clean -df