OSX CI Testing with Github Actions (#3)

* removes osx from Travis config

* adds github actions `lint-build-test` workflow

* adds unifrac to meta.yaml

* adds `unifrac`, `psutil` deps to recipe

* alphabetizes dependencies

* adds test data assets to setup.py

.github/workflows/lint-build-test.yml

@@ -0,0 +1,42 @@
+name: lint-build-test
+# build on every PR and commit to master
+on:
+  pull_request:
+  push:
+    branches:
+      - master
+
+jobs:
+  lint:
+    runs-on: ubuntu-latest
+    steps:
+    - uses: actions/checkout@v2
+    - name: set up python 3.6
+      uses: actions/setup-python@v1
+      with:
+        python-version: 3.6
+    - name: install dependencies
+      run: python -m pip install --upgrade pip
+    - name: lint
+      run: |
+        pip install -q https://github.com/qiime2/q2lint/archive/master.zip
+        q2lint
+        pip install -q flake8
+        flake8
+
+  build-and-test:
+    needs: lint
+    strategy:
+      matrix:
+        os: [ubuntu-latest, macos-latest]
+    runs-on: ${{ matrix.os }}
+    steps:
+    - uses: actions/checkout@v2
+      with:
+        fetch-depth: 0
+    # for versioneer
+    - run: git fetch --depth=1 origin +refs/tags/*:refs/tags/*
+    - uses: qiime2/action-library-packaging@alpha1
+      with: 
+        plugin-name: q2-diversity-lib
+        additional-tests: pytest --pyargs q2_diversity_lib

.travis.yml

@@ -3,7 +3,6 @@ sudo: false
 language: python
 os:
   - linux
-  - osx
 
 before_install:
   - export MPLBACKEND='Agg'

ci/recipe/meta.yaml

@@ -18,12 +18,14 @@ requirements:
     - setuptools
 
   run:
-    - pandas
-    - scikit-bio
     - biom-format >=2.1.5,<2.2.0
+    - decorator
+    - pandas
+    - psutil
     - qiime2 {{ release }}.*
     - q2-types {{ release }}.*
-    - decorator
+    - scikit-bio
+    - unifrac
 
 test:
   imports:

q2_diversity_lib/beta.py

@@ -1,5 +1,5 @@
 # ----------------------------------------------------------------------------
-# Copyright (c) 2018-2019, QIIME 2 development team.
+# Copyright (c) 2018-2020, QIIME 2 development team.
 #
 # Distributed under the terms of the Modified BSD License.
 #

q2_diversity_lib/tests/test_beta.py

@@ -1,5 +1,5 @@
 # ----------------------------------------------------------------------------
-# Copyright (c) 2018-2019, QIIME 2 development team.
+# Copyright (c) 2018-2020, QIIME 2 development team.
 #
 # Distributed under the terms of the Modified BSD License.
 #

setup.py

@@ -24,7 +24,8 @@
     url="https://qiime2.org",
     license='BSD-3-Clause',
     package_data={
-        'q2_diversity_lib': ['citations.bib']
+        'q2_diversity_lib': ['citations.bib'],
+        'q2_diversity_lib.tests': ['data/*']
     },
     zip_safe=False,
 )