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authorzsloan2016-05-17 16:03:05 +0000
committerzsloan2016-05-17 16:03:05 +0000
commit0d590051ce073a169295382e5adac34cc803e5ac (patch)
tree76bea6f1f69288a498e9f13d20b638b942ab0a0c /etc
parentf6cee1731772c3482b0afd4c77472d69e747c655 (diff)
parent04afa563e6d53fe2a91ac2e6eb4af2f2fa5d5c3b (diff)
downloadgenenetwork2-0d590051ce073a169295382e5adac34cc803e5ac.tar.gz
Merge branch 'staging' of github.com:genenetwork/genenetwork2
Diffstat (limited to 'etc')
-rw-r--r--etc/default_settings.py29
-rw-r--r--etc/nginx-genenetwork.conf54
2 files changed, 83 insertions, 0 deletions
diff --git a/etc/default_settings.py b/etc/default_settings.py
new file mode 100644
index 00000000..0cf40265
--- /dev/null
+++ b/etc/default_settings.py
@@ -0,0 +1,29 @@
+import os
+import sys
+
+LOGFILE = "/tmp/genenetwork2.log"
+
+# This is needed because Flask turns key errors into a
+# 400 bad request response with no exception/log
+TRAP_BAD_REQUEST_ERRORS = True
+
+DB_URI = "mysql://gn2:mysql_password@localhost/db_webqtl_s"
+SQLALCHEMY_DATABASE_URI = 'mysql://gn2:mysql_password@localhost/db_webqtl_s'
+
+# http://pythonhosted.org/Flask-Security/configuration.html
+SECURITY_CONFIRMABLE = True
+SECURITY_TRACKABLE = True
+SECURITY_REGISTERABLE = True
+SECURITY_RECOVERABLE = True
+SECURITY_EMAIL_SENDER = "no-reply@genenetwork.org"
+SECURITY_POST_LOGIN_VIEW = "/thank_you"
+SQLALCHEMY_POOL_RECYCLE = 3600
+
+SERVER_PORT = 5003
+SECRET_HMAC_CODE = '\x08\xdf\xfa\x93N\x80\xd9\\H@\\\x9f`\x98d^\xb4a;\xc6OM\x946a\xbc\xfc\x80:*\xebc'
+
+# Path overrides for Genenetwork
+GENENETWORK_FILES = os.environ['HOME']+"/gn2_data"
+PYLMM_COMMAND = str.strip(os.popen("which pylmm_redis").read())
+PLINK_COMMAND = str.strip(os.popen("which plink2").read())
+GEMMA_COMMAND = str.strip(os.popen("which gemma").read())
diff --git a/etc/nginx-genenetwork.conf b/etc/nginx-genenetwork.conf
new file mode 100644
index 00000000..06fd3c57
--- /dev/null
+++ b/etc/nginx-genenetwork.conf
@@ -0,0 +1,54 @@
+user nobody;
+worker_processes 4;
+pid /var/run/nginx.pid;
+
+error_log /var/log/nginx/error.log;
+
+events {
+ worker_connections 16;
+}
+
+http {
+ include mime.types;
+ # default_type application/octet-stream;
+
+ # sendfile on;
+ keepalive_timeout 480;
+
+ server {
+ listen 80;
+ server_name localhost;
+
+ location / {
+ root html;
+ index index.html index.htm;
+ }
+
+ error_page 500 502 503 504 /50x.html;
+ location = /50x.html {
+ root html;
+ }
+ }
+
+ server {
+ listen 80;
+ server_name test-gn2.genenetwork.org;
+ access_log logs/test-gn2.access.log;
+
+ proxy_connect_timeout 3000;
+ proxy_send_timeout 3000;
+ proxy_read_timeout 3000;
+ send_timeout 3000;
+
+ location / {
+ # proxy_set_header Host $host;
+ proxy_set_header Host $http_host;
+ # proxy_redirect off;
+ proxy_set_header Connection keep-alive;
+ proxy_set_header X-Real-IP $remote_addr;
+ proxy_set_header X-Forwarded-For $proxy_add_x_forwarded_for;
+ proxy_set_header X-Forwarded-Host $server_name;
+ proxy_pass http://127.0.0.1:5003;
+ }
+ }
+}