Merge remote-tracking branch 'origin/testing' into feature/add_rqtl_pairscan

4 files changed, 0 insertions, 139 deletions

diff --git a/.github/ISSUE_TEMPLATE/bug_report.md b/.github/ISSUE_TEMPLATE/bug_report.md
deleted file mode 100644
index af60c290..00000000
--- a/.github/ISSUE_TEMPLATE/bug_report.md
+++ /dev/null
@@ -1,28 +0,0 @@
----
-name: Bug report
-about: Create a report to help us improve
-title: '[Bug] Bug Title'
-labels: ''
-assignees: ''
-
----
-
-**Describe the bug**
-<!-- A clear and concise description of what the bug is. -->
-
-**To Reproduce**
-<!-- Steps to reproduce the behavior -->
-
-**Expected behavior**
-<!-- A clear and concise description of what you expected to happen. -->
-
-**Screenshots**
-<!-- If applicable, add screenshots to help explain your problem. -->
-
-**Environment setup (please complete the following information):**
-<!-- - OS: [e.g. Linux] -->
-<!-- - Guix Version (optional) -->
-<!-- - [Anything else you think is relevant] -->
-
-**Additional context**
-<!-- Add any other context about the problem here. -->
diff --git a/.github/ISSUE_TEMPLATE/feature_request.md b/.github/ISSUE_TEMPLATE/feature_request.md
deleted file mode 100644
index 813974c1..00000000
--- a/.github/ISSUE_TEMPLATE/feature_request.md
+++ /dev/null
@@ -1,30 +0,0 @@
----
-name: Feature request
-about: Suggest a new feature for this project(Very Specific)
-title: '[Feature] My-cool-feature'
-labels: ''
-assignees: ''
-
----
-
-## Is your feature request related to a problem? Please describe.
-<!-- A clear and concise description of what the problem is. -->
-<!-- Example: I'm always frustrated when [...] -->
-
-## Describe the solution you'd like
-<!-- A clear and concise description of what you want to happen. -->
-
-## Describe alternatives you've considered
-<!-- A clear and concise description of any alternative solutions or features you've considered. -->
-
-## User Stories (optional)
-<!-- Example: -->
-<!-- As a _[role or persona]_, I want _[goal/ need]_ so that _[why]_ -->
-<!-- **Feature:** _[Brief description of feature]_ -->
-<!-- _[Any additional descriptions on feature]_ -->
-<!-- **Scenario:**
-Please use _[Gherkin](https://cucumber.io/docs/gherkin/reference/)_
-here -->
-
-## Additional context
-<!-- Add any other context or screenshots about the feature request here. -->
diff --git a/.github/ISSUE_TEMPLATE/user_story.md b/.github/ISSUE_TEMPLATE/user_story.md
deleted file mode 100644
index d46976ba..00000000
--- a/.github/ISSUE_TEMPLATE/user_story.md
+++ /dev/null
@@ -1,12 +0,0 @@
----
-name: User Story
-about: Suggest an idea for this project
-title: ['Feature] My-cool-new-feature'
-labels: ''
-assignees: ''
-
----
-<!-- As a _[role or persona]_, I want _[goal/ need]_ so that _[why]_ -->
-<!-- **Feature:** _[Brief description of feature]_ -->
-<!-- _[Any additional descriptions on feature]_ -->
-<!-- **Scenario:** Please use _[Gherkin](https://cucumber.io/docs/gherkin/reference/)_ here -->
diff --git a/.github/workflows/main.yml b/.github/workflows/main.yml
deleted file mode 100644
index 0cf4557f..00000000
--- a/.github/workflows/main.yml
+++ /dev/null
@@ -1,69 +0,0 @@
-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