Sentinel #983
This file contains bidirectional Unicode text that may be interpreted or compiled differently than what appears below. To review, open the file in an editor that reveals hidden Unicode characters.
Learn more about bidirectional Unicode characters
name: Sentinel | |
on: | |
# Trigger the workflow on push or pull request, | |
# but only for the main branch | |
push: | |
branches: | |
- main | |
pull_request: | |
schedule: | |
- cron: '0 6 * * 1,4' | |
env: | |
NIGHT: 20190903 | |
CONFIGFILE_PATH: fink_mm/conf/integration.conf | |
SECRET_ID: ${{ secrets.GCN_ID }} | |
SECRET_SECRET: ${{ secrets.GCN_SECRET }} | |
jobs: | |
run-unit-test: | |
name: run-unit-test | |
runs-on: ubuntu-latest | |
strategy: | |
matrix: | |
container: ["julienpeloton/fink-ci:dev"] | |
container: | |
image: ${{ matrix.container }} | |
steps: | |
- uses: actions/checkout@v2 | |
- name: Set up env [1/3] | |
run: | | |
echo "ROOTPATH=`pwd`" >> $GITHUB_ENV | |
echo "FINK_MM=$GITHUB_WORKSPACE" >> $GITHUB_ENV | |
echo "JAVA_HOME=$(dirname $(dirname $(readlink -f $(which java))))" >> $GITHUB_ENV | |
- name: Set up env [2/3] | |
run: | | |
echo "PYTHONPATH="${PYTHONPATH}:${SPARKLIB}:${FINK_MM}"" >> $GITHUB_ENV | |
- name: Install fink-broker | |
run: | | |
cd ${HOME} | |
git clone https://github.com/astrolabsoftware/fink-broker.git | |
cd fink-broker | |
pip install . | |
echo "FINK_HOME=${HOME}/fink-broker" >> $GITHUB_ENV | |
cd $FINK_MM | |
- name: Set up env [3/3] | |
run: | | |
echo "PYTHONPATH=${PYTHONPATH}:${FINK_HOME}" >> $GITHUB_ENV | |
echo "${FINK_HOME}/bin" >> $GITHUB_PATH | |
echo "FINK_PACKAGES=org.apache.spark:spark-streaming-kafka-0-10-assembly_2.12:3.4.1,org.apache.spark:spark-sql-kafka-0-10_2.12:3.4.1,org.apache.spark:spark-avro_2.12:3.4.1,org.apache.hbase:hbase-shaded-mapreduce:2.2.7" >> $GITHUB_ENV | |
echo "FINK_JARS=${FINK_HOME}/libs/hbase-spark-hbase2.2_spark3_scala2.11_hadoop2.7.jar,${FINK_HOME}/libs/hbase-spark-protocol-shaded-hbase2.2_spark3_scala2.11_hadoop2.7.jar" >> $GITHUB_ENV | |
- name: Install requirements | |
run: | | |
pip install -r requirements.txt | |
- name: Check env | |
run: | | |
echo "GITHUB_PATH: $GITHUB_PATH" | |
echo "PATH: $PATH" | |
echo "FINK_MM: $FINK_MM" | |
echo "SPARK_HOME: $SPARK_HOME" | |
echo "SPARKLIB: $SPARKLIB" | |
echo "PYTHONPATH: $PYTHONPATH" | |
echo "JAVA_HOME: $JAVA_HOME" | |
echo "FINK_HOME: $FINK_HOME" | |
echo "FINK_PACKAGES: $FINK_PACKAGES" | |
echo "FINK_JARS: $FINK_JARS" | |
echo `python -V` | |
echo | |
echo | |
export | |
- name: Start services | |
run: | | |
cd $USRLIBS | |
source scripts/start_services.sh --kafka-version ${KAFKA_VERSION} --hbase-version ${HBASE_VERSION} | |
cd $FINK_MM | |
# - name: Call raw2science | |
# run: | | |
# fink start raw2science -c ${FINK_MM}/fink_mm/test/test_data/with_hbase/fink_test.conf --night $NIGHT --exit_after 90 | |
# - name: Merge data | |
# run: | | |
# fink start merge -c ${FINK_MM}/fink_mm/test/test_data/with_hbase/fink_test.conf --night $NIGHT | |
- name: Test preamble | |
run: | | |
echo "PYTHONPATH="${SPARK_HOME}/python/test_coverage:$PYTHONPATH"" >> $GITHUB_ENV | |
echo "COVERAGE_PROCESS_START="${ROOTPATH}/.coveragerc"" >> $GITHUB_ENV | |
python -m pip install . --upgrade | |
pip install -U fink_filters | |
- name: Run test suites | |
run: | | |
coverage run --source=${ROOTPATH} --rcfile=${ROOTPATH}/.coveragerc -m pytest --doctest-modules fink_mm | |
curl -s https://codecov.io/bash | bash | |
# run-integration-test: | |
# name: run-integration-test | |
# runs-on: ubuntu-latest | |
# strategy: | |
# matrix: | |
# container: ["julienpeloton/fink-ci:prod"] | |
# container: | |
# image: ${{ matrix.container }} | |
# steps: | |
# - uses: actions/checkout@v2 | |
# - name: Set up env [1/3] | |
# run: | | |
# echo "ROOTPATH=`pwd`" >> $GITHUB_ENV | |
# echo "FINK_MM=$GITHUB_WORKSPACE" >> $GITHUB_ENV | |
# echo "JAVA_HOME=$(dirname $(dirname $(readlink -f $(which java))))" >> $GITHUB_ENV | |
# - name: Set up env [2/3] | |
# run: | | |
# echo "PYTHONPATH="${PYTHONPATH}:${SPARKLIB}:${FINK_MM}"" >> $GITHUB_ENV | |
# echo "NIGHT=`date +"%Y%m%d" -d "now"`" >> $GITHUB_ENV | |
# - name: Install fink-broker | |
# run: | | |
# cd ${HOME} | |
# git clone https://github.com/astrolabsoftware/fink-broker.git | |
# cd fink-broker | |
# pip install . | |
# echo "FINK_HOME=${HOME}/fink-broker" >> $GITHUB_ENV | |
# cd $FINK_MM | |
# - name: Set up env [3/3] | |
# run: | | |
# echo "PYTHONPATH=${PYTHONPATH}:${FINK_HOME}" >> $GITHUB_ENV | |
# echo "${FINK_HOME}/bin" >> $GITHUB_PATH | |
# echo "FINK_PACKAGES=org.apache.spark:spark-streaming-kafka-0-10-assembly_2.12:3.1.3,org.apache.spark:spark-sql-kafka-0-10_2.12:3.1.3,org.apache.spark:spark-avro_2.12:3.1.3,org.apache.hbase:hbase-shaded-mapreduce:2.2.7" >> $GITHUB_ENV | |
# echo "FINK_JARS=${FINK_HOME}/libs/hbase-spark-hbase2.2_spark3_scala2.11_hadoop2.7.jar,${FINK_HOME}/libs/hbase-spark-protocol-shaded-hbase2.2_spark3_scala2.11_hadoop2.7.jar" >> $GITHUB_ENV | |
# - name: Install requirements | |
# run: | | |
# pip install -r requirements.txt | |
# - name: Test preamble | |
# run: | | |
# echo "PYTHONPATH="${SPARK_HOME}/python/test_coverage:$PYTHONPATH"" >> $GITHUB_ENV | |
# echo "COVERAGE_PROCESS_START="${ROOTPATH}/.coveragerc"" >> $GITHUB_ENV | |
# python -m pip install . --upgrade | |
# python -m pip install -U fink_filters | |
# mkdir fink_mm/ci_gcn_test | |
# mkdir fink_mm/ci_join_test | |
# - name: Launch GCN stream | |
# # don't put --test for the gcn_stream command otherwise it will miss the gw alerts | |
# shell: bash | |
# run: | | |
# fink_mm gcn_stream start --config $CONFIGFILE_PATH --test --verbose > fink_mm_gcnstream_${NIGHT}.log 2>&1 & | |
# sleep 180s | |
# - name: Start services | |
# run: | | |
# cd $USRLIBS | |
# source scripts/start_services.sh --kafka-version ${KAFKA_VERSION} --hbase-version ${HBASE_VERSION} | |
# cd $FINK_MM | |
# - name: Generate fake gcn counterparts | |
# run: | | |
# python fink_mm/test/prep_ztf_data.py | |
# mv fink_mm/test/test_data/ztf_test/online/raw/year=2019 fink_mm | |
# - name: Check data | |
# run: | | |
# echo "GCN ALERTS" | |
# ls -dlth fink_mm/ci_gcn_test/*/*/*/* | |
# echo "" | |
# echo "ZTF ALERTS" | |
# echo "--- ONLINE SCIENCE" | |
# ls -dlth fink_mm/test/test_data/ztf_test/online/science/*/*/*/* | |
# echo "--- ARCHIVE SCIENCE" | |
# ls -dlth fink_mm/test/test_data/ztf_test/archive/science/*/*/*/* | |
# # - name: Call raw2science | |
# # run: | | |
# # fink start raw2science -c ${FINK_MM}/fink_mm/test/test_data/with_hbase/fink_test.conf --night $NIGHT --exit_after 90 | |
# # - name: Merge data | |
# # run: | | |
# # fink start merge -c ${FINK_MM}/fink_mm/test/test_data/with_hbase/fink_test.conf --night $NIGHT | |
# - name: Push Hbase data | |
# run: | | |
# fink start index_archival -c ${FINK_MM}/fink_mm/test/test_data/with_hbase/fink_test.conf --night $NIGHT --index_table jd_objectId | |
# - name: Run online join streaming | |
# run: | | |
# fink_mm join_stream online --config $CONFIGFILE_PATH --night $NIGHT --exit_after 180 --verbose | |
# - name: Run offline stream | |
# run: | | |
# fink_mm join_stream offline --night $NIGHT --config $CONFIGFILE_PATH --test --verbose | |
# - name: Online Distribution | |
# run: | | |
# fink_mm distribute --config $CONFIGFILE_PATH --night $NIGHT --exit_after 60 --verbose | |
# - name: Check online stream | |
# run: | | |
# ls -lth fink_mm/ci_join_test/online/*/*/* | |
# - name: Check offline stream | |
# run: | | |
# ls -lth fink_mm/ci_join_test/offline/*/*/* | |
# # - name: Check Distribution | |
# # run: | | |
# #python fink_mm/test/display_distribution.py |