blob: 0cf4557f02ddb60c26d0cd5936b1c6533049b412 (
plain)
1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
|
name: tests
# Run actions when pushing to the testing branch or when you create a
# PR against it
on:
push:
branches: [ testing ]
pull_request:
branches: [ testing ]
jobs:
unittest:
runs-on: ubuntu-latest
container: bonfacekilz/genenetwork2:latest
steps:
# First start with mariadb set then checkout. The checkout gives
# the mysqld enough time to start
- name: Set up mariadb
run: |
mysql_install_db --user=mysql --datadir=/usr/local/mysql
# Wait for the mysqld_safe process to start
mysqld_safe --user=mysql --datadir=/usr/local/mysql &
# Use v1 of checkout since v2 fails
- name: Checkout Project
uses: actions/checkout@v1
# Redis is required by some of the tests 6379
- name: Start Redis
run: |
/gn2-profile/bin/screen -dmLS redisconn /gn2-profile/bin/redis-server
# Initialise the tables
- name: Bootstrap tables
run: |
mysql -u root -e "SHOW DATABASES;"
mysql -u root -e "CREATE DATABASE db_webqtl_s;"
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: Start Genenetwork as a Background Task
run: |
/gn2-profile/bin/screen -dm bash -c "env GN2_PROFILE=/gn2-profile \
TMPDIR=/tmp SERVER_PORT=5004 \
WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \
GN_PROXY_URL='http://localhost:8080' \
GN3_LOCAL_URL='http://localhost:8081' \
GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \
etc/default_settings.py"
- name: Run the unit tests
run: |
env GN2_PROFILE=/gn2-profile \
TMPDIR=/tmp SERVER_PORT=5004 \
WEBSERVER_MODE=DEBUG LOG_LEVEL=DEBUG \
GN_PROXY_URL='http://localhost:8080' \
GN3_LOCAL_URL='http://localhost:8081' \
GENENETWORK_FILES=/genotype_files/ bin/genenetwork2 \
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
|
