Walk through README and make updates

Author: jrlegrand

README.md

@@ -6,6 +6,8 @@ Medication sig parser.
 
 Instructions for Linux:
 
+Clone repo and cd into `parserx` directory.
+
 Create virutal environment
 
 ```
@@ -29,66 +31,55 @@ Info on MySQLClient: https://pypi.org/project/mysqlclient/
 
 Gunicorn/Nginx: https://realpython.com/django-nginx-gunicorn/#replacing-wsgiserver-with-gunicorn
 
+Inital setup of MySQL
+
+```
+sudo mysql_secure_installation
+```
+
+Follow prompts to create root user password and accept default settings.
+
 ```
 sudo mysql
-ALTER USER 'root'@'localhost' IDENTIFIED WITH mysql_native_password by 'mynewpassword';
+CREATE USER 'parserx'@'localhost' IDENTIFIED BY 'P@ssw0rd';
 GRANT ALL PRIVILEGES ON parserx.* TO 'parserx'@'localhost' WITH GRANT OPTION;
+quit
 ```
 
-Terminal
+(back in terminal)
 
 ```
 mysql -u parserx -p
-<enter password>
-drop database parserx;
+<enter password = P@ssw0rd>
+drop database if exists parserx;
 create database parserx;
 quit
+```
+
+(back in terminal)
+
+```
 source venv/bin/activate
 python manage.py makemigrations
 python manage.py makemigrations sig
 python manage.py migrate
 python manage.py createsuperuser
 <follow createsuperuser prompts>
-python manage.py runserver 0.0.0.0:8000
+python manage.py runserver localhost:8000
 ```
 
-Postman
-
-1.) Authenticate with superuser
-POST localhost:8000/auth/token/login/
-Headers
-Content-Type application/json
-Body
-{
-	"username": "jrlegrand",
-	"password": "<password>"
-}
-Response
-{
-    "auth_token": "<auth token>"
-}
-
-2.) Run ParseRx on csv file via API
-POST localhost:8000/csv_sig/
-Headers
-Content-Type application/json
-Authorization Token <auth token>
-
-NOTE: to change the csv file that the API runs:
-    - Go to parserx/sig/views
-    - Edit filepath in the create method of CsvSigCreateViewSet
-    - The csv file is stored in parserx/parsers/csv
-
 
 ## Authenticate and parse a sig via the API
 
+Recommend using Postman
+
 1.) Authenticate with user
 POST localhost:8000/auth/token/login/
 Headers
 Content-Type application/json
 Body
 {
-	"username": "<username>",
+	"username": "<superuser username>",
 	"password": "<password>"
 }
 Response
@@ -101,10 +92,19 @@ POST localhost:8000/sig/
 Headers
 Content-Type    application/json
 Authorization   Token <auth token>
+Body
+{
+    "sig_text": "take 1-2 tabs po qid prn anxiety x7d"
+}
 
 
 ## Parsing / reparsing an entire CSV of sigs
 
+NOTE: to change the csv file that the API runs:
+    - Go to parserx/sig/views
+    - Edit filepath in the create method of CsvSigCreateViewSet
+    - The csv file is stored in parserx/parsers/csv
+
 Edit the name of the csv file in parserx.io/sig/views.py to be the csv you want to parse.
 ***NOTE: ensure you have converted it to just one column full of sigs with no header.
 
@@ -116,7 +116,7 @@ Headers
 Content-Type application/json
 Body
 {
-	"username": "<username>",
+	"username": "<superuser username>",
 	"password": "<password>"
 }
 Response
@@ -133,13 +133,15 @@ Authorization	Token <auth token>
 
 ## Submiting batch sig reviews to ParseRx via API (feedback loop)
 
+This would be for a "customer" that is receiving parsed sigs and wants to send back some feedback as a batch every night via the API.
+
 1.) Get auth token from ParseRx
 POST api.parserx.io/auth/token/login/
 Headers
 Content-Type application/json
 Body
 {
-	"username": "<username>",
+	"username": "<customer username>",
 	"password": "<password>"
 }
 Response

parsers/sig.py

@@ -120,7 +120,7 @@ def get_max_dose_per_day(self, match_dict):
 
     def parse(self, sig_text):
         match_dict = dict(self.match_dict)
-        match_dict['original_sig_text'] = sig_text
+        #match_dict['original_sig_text'] = sig_text
         sig_text = self.get_normalized_sig_text(sig_text)
         match_dict['sig_text'] = sig_text
         for parser_type, parsers in self.parsers.items():

parserx/settings.py

@@ -25,7 +25,7 @@
 # SECURITY WARNING: don't run with debug turned on in production!
 DEBUG = True
 
-ALLOWED_HOSTS = ['localhost']
+ALLOWED_HOSTS = ['*']
 
 CSRF_TRUSTED_ORIGINS=['https://api.parserx.io']
 
@@ -102,7 +102,7 @@
         'ENGINE': 'django.db.backends.mysql',
         'NAME': 'parserx',
         'USER': 'parserx',
-        'PASSWORD': 'password',
+        'PASSWORD': 'P@ssw0rd',
     }
 }