Merge pull request #442 from ReactionMechanismGenerator/gh_actions_ci

Migrate CI from Travis to GH Actions

.github/labeler.yml

@@ -0,0 +1,57 @@
+repo:
+  - ./*
+
+examples:
+  - examples/**/*
+
+tests:
+  - arc/**/*Tests.py
+
+'Module: Conformers':
+  - arc/species/conformers.py
+
+'Module: Converter':
+  - arc/species/converter.py
+
+'Module: Job':
+  - arc/job/job.py
+
+'Module: Local':
+  - arc/job/local.py
+
+'Module: Main':
+  - arc/main.py
+
+'Module: Parser':
+  - arc/parser.py
+
+'Module: Plotter':
+  - arc/plotter.py
+
+'Module: Processor':
+  - arc/processor.py
+
+'Module: Reaction':
+  - arc/reaction.py
+
+'Module: rmgdb':
+  - arc/rmgdb.py
+
+'Module: Scheduler':
+  - arc/scheduler.py
+
+'Module: Species':
+  - arc/species/species.py
+
+'Module: SSH':
+  - arc/job/ssh.py
+
+'Module: trsh':
+  - arc/job/trsh.py
+
+'Module: Utils':
+  - arc/job/utils/**/*
+
+'Module docs':
+  - arc/docs/**/*
+

.github/workflows/cont_int.yml

@@ -0,0 +1,56 @@
+name: continuous integration
+
+on: [push]
+
+jobs:
+  build:
+    runs-on: ubuntu-latest
+    strategy:
+      matrix:
+        python-version: [3.7, 3.8]
+
+    steps:
+    - uses: actions/checkout@v2
+    - name: Set up miniconda Python ${{ matrix.python-version }}
+      uses: conda-incubator/setup-miniconda@v2
+      with:
+        activate-environment: arc_env
+        environment-file: environment.yml
+        python-version: ${{ matrix.python-version }}
+        auto-activate-base: false
+    - name: Install dependencies
+      shell: bash -l {0}
+      run: |
+        export PYTHONPATH=$PYTHONPATH:$(pwd)
+        conda activate arc_env
+        cd ..
+        git clone https://github.com/ReactionMechanismGenerator/RMG-Py
+        cd RMG-Py
+        make
+        cd ..
+        git clone https://github.com/ReactionMechanismGenerator/RMG-database
+        cd ARC
+        conda deactivate
+        make gcn-cpu
+        cd ..
+        echo $(pwd)
+        conda list
+    - name: Lint with flake8
+      shell: bash -l {0}
+      run: |
+        conda install flake8
+        # stop the build if there are Python syntax errors or undefined names
+        python -m flake8 . --count --select=E9,F63,F7,F82 --show-source --statistics
+        # exit-zero treats all errors as warnings. The GitHub editor is 127 chars wide
+        python -m flake8 . --count --exit-zero --max-complexity=10 --max-line-length=127 --statistics
+    - name: Test with nosetests
+      shell: bash -l {0}
+      run: |
+        cd ..
+        cd RMG-Py
+        export PYTHONPATH=$PYTHONPATH:$(pwd)
+        cd ..
+        cd ARC
+        conda activate arc_env
+        make test
+        codecov --token=f259713a-7f1d-4e9c-b140-bb3bb371d3ef

.github/workflows/gh-pages.yml

@@ -0,0 +1,48 @@
+name: github pages
+
+on:
+  push:
+    branches:
+      - master
+      - docs
+
+jobs:
+  deploy:
+    runs-on: ubuntu-18.04
+    steps:
+      - uses: actions/checkout@v2
+
+      - name: Setup Python
+        uses: actions/setup-python@v2
+        with:
+          python-version: '3.8'
+
+      - name: Upgrade pip
+        run: |
+          # install pip=>20.1 to use "pip cache dir"
+          python3 -m pip install --upgrade pip
+
+      - name: Get pip cache dir
+        id: pip-cache
+        run: echo "::set-output name=dir::$(pip cache dir)"
+
+      - name: Cache dependencies
+        uses: actions/cache@v2
+        with:
+          path: ${{ steps.pip-cache.outputs.dir }}
+          key: ${{ runner.os }}-pip-${{ hashFiles('**/requirements.txt') }}
+          restore-keys: |
+            ${{ runner.os }}-pip-
+
+      - name: Install dependencies
+        run: python3 -m pip install -r ./requirements.txt
+
+      - run: export PYTHONPATH=$PYTHONPATH:$(pwd); cd docs; make html
+
+      - name: Deploy
+        uses: peaceiris/actions-gh-pages@v3.7.3
+        with:
+          github_token: ${{ secrets.GITHUB_TOKEN }}
+          publish_dir: ./docs/build/html/
+
+# https://github.com/marketplace/actions/github-pages-action

.github/workflows/labeler.yml

@@ -0,0 +1,16 @@
+# This workflow will triage pull requests and apply a label based on the
+# paths that are modified in the pull request.
+# See: https://github.com/actions/labeler/blob/master/README.md
+
+name: Labeler
+on: [pull_request]
+
+jobs:
+  label:
+
+    runs-on: ubuntu-latest
+
+    steps:
+    - uses: actions/labeler@v2
+      with:
+        repo-token: "${{ secrets.GITHUB_TOKEN }}"

Makefile

@@ -5,10 +5,10 @@
 ################################################################################
 
 test test-unittests:
-	nosetests --nocapture --nologcapture --all-modules --verbose --with-coverage --cover-inclusive --cover-package=arc --cover-erase --cover-html --cover-html-dir=testing/coverage
+	nosetests --nocapture --nologcapture --all-modules --verbose --with-coverage --cover-inclusive --cover-package=arc --cover-erase --cover-html --exe --cover-html-dir=testing/coverage
 
 gcn:
 	bash devtools/install_gcn.sh
 
-gcn-travis:
-	bash devtools/install_gcn_travis.sh
+gcn-cpu:
+	bash devtools/install_gcn_cpu.sh