diff options
Diffstat (limited to '.github/workflows')
| -rw-r--r-- | .github/workflows/main.yml | 31 |
1 files changed, 15 insertions, 16 deletions
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml index a36abc0a..8e2c7966 100644 --- a/.github/workflows/main.yml +++ b/.github/workflows/main.yml @@ -11,7 +11,7 @@ on: jobs: unittest: runs-on: ubuntu-latest - container: bonfacekilz/python3-genenetwork2:ad741c1 + container: bonfacekilz/genenetwork2:latest steps: # First start with mariadb set then checkout. The checkout gives @@ -31,7 +31,7 @@ jobs: run: | /gn2-profile/bin/screen -dmLS redisconn /gn2-profile/bin/redis-server - # Redis is required by some of the tests 6379 + # Initialise the tables - name: Bootstrap tables run: | mysql -u root -e "SHOW DATABASES;" @@ -39,28 +39,27 @@ jobs: mysql -u root -e "CREATE USER 'gn2'@'localhost' IDENTIFIED BY 'mysql_password';" mysql -u root -e "GRANT ALL PRIVILEGES ON *.* TO 'gn2'@'localhost';FLUSH PRIVILEGES;" - - name: Run the unit tests - run: | - env GN2_PROFILE=/gn2-profile \ - TMPDIR=/tmp SERVER_PORT=5004 \ - WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \ - GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \ - etc/default_settings.py -c -m unittest discover -v - - name: Start Genenetwork as a Background Task run: | - env GN2_PROFILE=/gn2-profile \ + /gn2-profile/bin/screen -dm bash -c "env GN2_PROFILE=/gn2-profile \ TMPDIR=/tmp SERVER_PORT=5004 \ WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \ GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \ - etc/default_settings.py& + etc/default_settings.py" - - name: Test for Broken Links + - name: Run the unit tests run: | - env GN2_PROFILE=/gn2-profile \ - TMPDIR=/tmp\ + TMPDIR=/tmp SERVER_PORT=5004 \ WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \ GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \ - etc/default_settings.py -c /__w/genenetwork2/genenetwork2/test/requests/links_scraper/genelinks.py + etc/default_settings.py -c -m unittest discover -v + # - name: Test for Broken Links + # run: | + # env GN2_PROFILE=/gn2-profile \ + # TMPDIR=/tmp\ + # WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \ + # GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \ + # etc/default_settings.py -c \ + # $PWD/test/requests/links_scraper/genelinks.py |