Merge pull request #138 from gyorilab/gunicorn

Allow for 'classic' gunicorn running

gilda/app/__init__.py

@@ -1,13 +1,19 @@
-import argparse
+"""
+Run the grounding app.
+
+Run as module:
+    `python -m gilda.app --host <host> --port <port> --terms <terms>`
+
+Run with gunicorn:
+    `gunicorn -w <worker count> -b <host>:<port> -t <timeout> gilda.app:gilda_app`
+
+In case a non-standard set of terms is to be used, set the `GILDA_TERMS`
+environment variable to the path to the terms file.
+"""
+
+import os
 from .app import get_app
 
 
-def main():
-    parser = argparse.ArgumentParser(
-        description='Run the grounding app.')
-    parser.add_argument('--host', default='0.0.0.0')
-    parser.add_argument('--port', default=8001, type=int)
-    parser.add_argument('--terms')
-    args = parser.parse_args()
-    app = get_app(terms=args.terms)
-    app.run(host=args.host, port=args.port, threaded=False)
+terms = os.environ.get('GILDA_TERMS')
+gilda_app = get_app(terms=terms)

gilda/app/__main__.py

@@ -1,5 +1,24 @@
-from . import main
+"""
+Runs the Gilda grounding app as a module. Usage:
+
+    `python -m gilda.app --host <host> --port <port> --terms <terms>`
+"""
+
+import argparse
+from .app import get_app
+
+
+def parse_args():
+    parser = argparse.ArgumentParser(
+        description='Run the grounding app.')
+    parser.add_argument('--host', default='0.0.0.0')
+    parser.add_argument('--port', default=8001, type=int)
+    parser.add_argument('--terms')
+    args = parser.parse_args()
+    return args
 
 
 if __name__ == '__main__':
-    main()
+    args = parse_args()
+    app = get_app(args.terms)
+    app.run(args.host, args.port, threaded=False)

gilda/app/templates/base.html

@@ -38,8 +38,8 @@ <h2 style="margin-top: 10px; margin-bottom: 10px;">Gilda Grounding Service</h2>
           Gilda is developed by the <a href="https://gyorilab.github.io"
           target="_blank">Gyori Lab for Computational Biomedicine</a>
           at <a href="https://www.northeastern.edu" target="_blank">Northeastern University</a>.
-          Its development was funded by DARPA grants W911NF-15-1-0544 and
-          W911NF-20-1-0255.
+          Its development is funded by DARPA grants W911NF-15-1-0544,
+          W911NF-20-1-0255, and HR00112220036.
           Point of contact: <a href="mailto:b.gyori@northeastern.edu">Benjamin M. Gyori</a>.
       </p>
     </div>