add cicd build

Author: vangj

.dockerignore

@@ -0,0 +1,10 @@
+.pytest_cache/
+build/
+coverage/
+dist/
+pybbn.egg-info/
+docs/build/
+.coverage
+.noseids
+.ipynb_checkpoints/
+joblib_memmap/

Dockerfile

@@ -0,0 +1,17 @@
+FROM oneoffcoder/python-java:latest
+
+LABEL author="Jee Vang, Ph.D."
+LABEL email="[email protected]"
+
+ARG ALIB_VERSION
+ARG APYPI_REPO
+
+ENV LIB_VERSION=$ALIB_VERSION
+ENV PYPI_REPO=$APYPI_REPO
+
+RUN apt-get update \
+    && apt-get upgrade -y \
+    && DEBIAN_FRONTEND=noninteractive apt-get install graphviz libgraphviz-dev pkg-config -y
+COPY . /pypi-lib
+RUN pip install -r /pypi-lib/requirements.txt
+RUN /pypi-lib/publish.sh

build.sh

@@ -0,0 +1,28 @@
+#!/bin/bash
+
+DOCKER_FILE=Dockerfile
+DOCKER_REPO=lassobbn
+DOCKER_TAG=local
+ALIB_VERSION=version
+APYPI_REPO=repo
+
+while getopts v:r: option
+do
+  case "${option}"
+  in
+  v) ALIB_VERSION=${OPTARG};;
+  r) APYPI_REPO=${OPTARG};;
+esac
+done
+
+if [[ "version" == ALIB_VERSION || "repo" == $APYPI_REPO ]]; then
+  echo "Usage: ./build.sh -r [pypi|testpypi] -v [version]"
+  echo "     -r repository, pypi or testpypi"
+  echo "     -v version e.g. 0.2.5"
+else
+  docker build --no-cache \
+    -f $DOCKER_FILE \
+    --build-arg ALIB_VERSION=$ALIB_VERSION \
+    --build-arg APYPI_REPO=$APYPI_REPO \
+    -t ${DOCKER_REPO}:${DOCKER_TAG} .
+fi

publish.sh

@@ -0,0 +1,66 @@
+#!/bin/bash
+
+SOURCE_DIST=/py-bbn/dist/pybbn-${LIB_VERSION}.tar.gz
+
+buildCode() {
+  echo "start the build"
+  cd /pypi-lib \
+    && make clean \
+    && make \
+    && python setup.py sdist bdist bdist_wheel \
+    && twine check dist/* \
+    && cd /pypi-lib/docs \
+    && make html
+}
+
+updateVersion() {
+  echo "replace version of software to ${LIB_VERSION}"
+  sed -i "s/version='0.0.1'/version='${LIB_VERSION}'/g" /pypi-lib/setup.py
+}
+
+copyCredentials() {
+  if [[ -f /pypi-lib/.pypirc ]]; then
+    echo "copying over .pypirc"
+    cp /pypi-lib/.pypirc /root/.pypirc
+  fi
+}
+
+publish() {
+  echo "python publish"
+
+  if [[ -f /root/.pypirc ]]; then
+    if [[ -f ${SOURCE_DIST} ]]; then
+      echo "uploading source"
+      cd /pypi-lib \
+        && make clean \
+        && python setup.py sdist \
+        && twine upload --repository ${PYPI_REPO} ${SOURCE_DIST}
+    else
+      echo "no ${SOURCE_DIST} found!"
+    fi
+  else
+    echo "no .pypirc found!"
+  fi
+}
+
+cleanUp() {
+  if [[ -f /root/.pypirc ]]; then
+    echo "cleaning up"
+    rm -f /root/.pypirc
+  fi
+}
+
+build() {
+  echo "python build"
+  buildCode
+  publish
+}
+
+conda init bash
+. /root/.bashrc
+updateVersion
+copyCredentials
+build
+cleanUp
+
+echo "done!"

requirements.txt

@@ -14,5 +14,9 @@ pybbn
 # DOCUMENTATION
 sphinx
 sphinx_rtd_theme
+sphinxcontrib-bibtex
+sphinxcontrib-blockdiag
+sphinx-sitemap
+nbsphinx
 # PUBLISHING
 twine