Merge pull request #65 from kbase/develop

Merge to release version 1.0.0

.coveragerc

@@ -0,0 +1,13 @@
+[run]
+omit =
+    test/*
+    feeds/biokbase/*
+source = feeds
+
+[report]
+exclude_lines =
+    # Have to re-enable the standard pragma
+    pragma: no cover
+
+    # Don't complain if tests don't hit defensive assertion code:
+    raise NotImplementedError

.gitignore

@@ -1,3 +1,9 @@
+node_modules/
+bower_components/
+deploy.cfg
+.DS_Store
+feeds/gitcommit.py
+
 # Byte-compiled / optimized / DLL files
 __pycache__/
 *.py[cod]

.travis.yml

@@ -0,0 +1,31 @@
+dist: trusty
+sudo: required
+language: python
+python:
+  - 3.6
+services:
+  - docker
+
+env:
+  # - MONGODB_VER=mongodb-linux-x86_64-2.6.12
+  # - MONGODB_VER=mongodb-linux-x86_64-3.4.16
+  - MONGODB_VER=mongodb-linux-x86_64-3.6.2
+
+before_install:
+  - sudo apt-get -qq update
+  - pip install coveralls
+
+install:
+  - pip install -r requirements.txt
+  - pip install -r dev-requirements.txt
+
+script:
+  - wget https://fastdl.mongodb.org/linux/$MONGODB_VER.tgz
+  - tar xfz $MONGODB_VER.tgz
+  - export MONGOD=`pwd`/$MONGODB_VER/bin/mongod
+  - sed -i "s#^mongo-exe.*#mongo-exe=$MONGOD#" test/test.cfg
+  - cat test/test.cfg
+  - make test
+
+after_script:
+  - coveralls

Dockerfile

@@ -0,0 +1,25 @@
+FROM kbase/kb_python:python3
+
+ARG BUILD_DATE
+ARG VCS_REF
+ARG BRANCH=develop
+
+COPY ./ /kb/module
+WORKDIR /kb/module
+
+RUN pip install --upgrade pip setuptools wheel
+RUN while read requirement; do conda install --yes $requirement || pip install $requirement; done < /kb/module/requirements.txt
+
+LABEL org.label-schema.build-date=$BUILD_DATE \
+      org.label-schema.vcs-url="https://github.com/kbase/feeds.git" \
+      org.label-schema.vcs-ref=$VCS_REF \
+      org.label-schema.schema-version="1.0.0-rc1" \
+      us.kbase.vcs-branch=$BRANCH \
+      maintainer="Steve Chan sychan@lbl.gov"
+
+ENV KB_DEPLOYMENT_CONFIG=/kb/module/deploy.cfg
+
+ENTRYPOINT [ "/kb/deployment/bin/dockerize" ]
+CMD [ "--template", \
+      "/kb/module/deployment/conf/.templates/deploy.cfg.templ:/kb/module/deploy.cfg" \
+      "make start" ]

Makefile

@@ -0,0 +1,25 @@
+GITCOMMIT = $(shell git rev-parse HEAD)
+
+all:
+	echo "# Don't check this file into git please" > feeds/gitcommit.py
+	echo 'commit = "$(GITCOMMIT)"' >> feeds/gitcommit.py
+
+install:
+	pip install -r requirements.txt
+	pip install -r dev-requirements.txt
+
+docs:
+	-rm -r docs
+	-rm -r docsource/internal_apis
+	mkdir -p docs
+	sphinx-apidoc --separate -o docsource/internal_apis feeds
+
+test: all
+	flake8 feeds
+	# flake8 test
+	pytest --verbose test --cov=feeds --cov-report html feeds -s
+
+start: all
+	gunicorn --worker-class gevent --timeout 300 --workers 5 --bind :5000 feeds.server:app
+
+.PHONY: test docs