doc: update readMe

README.md

@@ -1,27 +1,50 @@
 # Timeline-Patient
 
+## Setup environnement variables
+
+First of all, environnement variables need to be set.
+Start by creating a `.env` file located at the root of the project. Copy in it the content of `.env.template` file.
+
+Set each of the constant values.
+
+
+## Setup Python virtual env
+
+From the `/python` project folder.
+
+```sh
+python3 -m venv ./.venv
+
+source ./.venv/bin/activate
+
+pip install -r requirements.txt
+```
+
 ## Start MinIO server
 
+From the project root folder.
+
 ```docker-compose up```
 
-## Setup `documents` Buckets
+NB: The MinIO server will have the credentials set in the `.env` file (ie `MINIO_ACCESS_KEY` & `MINIO_SECRET_KEY`)
 
-Once MinIO server is launched, go to `http://localhost:9001` and login with the credentials
+## Launch script to setup fake documents
 
-```
-Username: minio
-Password: minio123
+```sh
+python3 python/main.sh
 ```
 
-Then, go to `Buckets -> Create Bucket` and set your bucket name as `documents` or whatever you want.
+## Setup `DocumentReference` resource
 
-Go to the `manage` menu of your freshly created bucket and set its access policy to `Public`
+All there is to do now is to set a new mapping `DocumentReference` (for instance in River). 
 
-You can then populate your bucket with any kind of PDF.
+- Set its source table to `timeline_documents`.
+- Plug the `content[0].attachment.url` attirbute to `timeline_documents.doc_url`
+- Plug the `subject.identifier.value` attribute to `timeline_documents.patient_id`
 
-## Setup `DocumentReference` resource
+You can check on the preview if everything is alright. 
 
-In order to make PDF viewing available from `DocumentReference` resources, you'll have to set a value for `content[0].attachment.url` attribute. This url should respect this pattern : `http://localhost:9000/[yourBucketName]/[yourPDFName]`. Do not forget the `.pdf` extension.
+Once it is, just launch a batch for this `DocumentReference` resource.
 
 ## Install App dependencies