263 lines
11 KiB
Markdown
263 lines
11 KiB
Markdown
> This doc is a WIP and will be expanded shortly.
|
|
>
|
|
> In the meantime, please consider looking at the extensive docs in the [Fasten Docs Repository](https://github.com/fastenhealth/docs/tree/main/technical)
|
|
|
|
# Tech Stack
|
|
|
|
Fasten is made up of a handful of different components. Here's a summary of the technologies & languages used in Fasten:
|
|
|
|
**Frontend**
|
|
- NodeJS `v18.9.0`
|
|
- Yarn `1.22.19`
|
|
- Angular `v14.1.3`
|
|
|
|
**Backend**
|
|
- Go `v1.18.3`
|
|
|
|
**Misc**
|
|
- Docker `v20.10.17`
|
|
|
|
## Setup
|
|
|
|
If you're on a Mac, you can run the following commands to install the necessary software to get setup:
|
|
|
|
```bash
|
|
brew install node
|
|
npm install -g @angular/cli@14.1.3
|
|
npm install -g yarn
|
|
|
|
brew install go
|
|
|
|
brew install docker
|
|
|
|
# Go specific tools
|
|
go install github.com/gzuidhof/tygo@latest
|
|
```
|
|
|
|
# Running Tests
|
|
|
|
Before making changes to Fasten, you'll want to run the test suites to ensure that your environment is setup correctly:
|
|
|
|
```bash
|
|
make test
|
|
|
|
# if you only want to run the frontend tests (Angular), you can run:
|
|
make test-frontend
|
|
|
|
# alternatively, if you only care about backend (Go) tests, you can run:
|
|
make test-backend
|
|
```
|
|
|
|
# Start Development Environment
|
|
|
|
To run Fasten from source, you'll need to create 2 separate processes:
|
|
|
|
- Angular Frontend
|
|
- Go Backend
|
|
|
|
First we'll create a development config file (`config.dev.yaml`)
|
|
|
|
```yaml
|
|
version: 1
|
|
web:
|
|
listen:
|
|
port: 9090
|
|
host: 0.0.0.0
|
|
basepath: ''
|
|
src:
|
|
frontend:
|
|
path: ./dist
|
|
database:
|
|
location: 'fasten.db'
|
|
cache:
|
|
location: ''
|
|
log:
|
|
file: '' #absolute or relative paths allowed, eg. web.log
|
|
level: INFO
|
|
```
|
|
|
|
Next we'll start the processes described above:
|
|
|
|
```bash
|
|
|
|
# In terminal #1, run the following
|
|
make build-frontend-[sandbox|prod]
|
|
# eg. make build-frontend-sandbox
|
|
|
|
# In terminal #2, run the following
|
|
make serve-backend
|
|
|
|
```
|
|
|
|
_Note_: Fasten can run in 2 modes: sandbox or production (prod). In sandbox mode, it can only communicate with test servers (full of synthetic health data).
|
|
|
|
Now you can open a browser to `http://localhost:9090` to see the Fasten UI.
|
|
|
|
## Important URL's
|
|
|
|
The following URL's and credentials may be helpful as you're developing
|
|
|
|
- http://localhost:9090/web/dashboard - WebUI
|
|
|
|
### Credentials
|
|
- WebUI:
|
|
- username: `testuser`
|
|
- password: `testuser`
|
|
|
|
# Source Code Folder Structure
|
|
|
|
The Fasten source code is organized into a handful of important folders, which we'll describe below:
|
|
|
|
## Frontend
|
|
|
|
```
|
|
├── frontend
|
|
│ ├── src
|
|
│ │ ├── app
|
|
│ │ │ ├── app-routing.module.ts
|
|
│ │ │ ├── app.component.html
|
|
│ │ │ ├── app.component.scss
|
|
│ │ │ ├── app.component.spec.ts
|
|
│ │ │ ├── app.component.ts
|
|
│ │ │ ├── app.module.ts
|
|
│ │ │ ├── components # contains shared/partial components reused on multiple pages.
|
|
│ │ │ │ ├── components-sidebar
|
|
│ │ │ │ ├── footer
|
|
│ │ │ │ ├── header
|
|
│ │ │ │ ├── list-fallback-resource
|
|
│ │ │ │ ├── list-generic-resource # A component containing a table view for every FHIR resource
|
|
│ │ │ │ ├── list-patient
|
|
│ │ │ │ ├── resource-list # Thin shim which populates template depending on FHIR resource type
|
|
│ │ │ │ ├── toast # Toast/notification component
|
|
│ │ │ │ └── utilities-sidebar
|
|
│ │ │ ├── models # contains classes for communicating with API's and transfering data between pages.
|
|
│ │ │ ├── pages
|
|
│ │ │ │ ├── auth-signin # Login/Signin page
|
|
│ │ │ │ ├── auth-signup # Signup page
|
|
│ │ │ │ ├── dashboard # Dashboard, visible after logging in
|
|
│ │ │ │ ├── medical-sources # Medical Provider connection page
|
|
│ │ │ │ ├── patient
|
|
│ │ │ │ ├── resource-detail # Page displaying detailed information about FHIR resource
|
|
│ │ │ │ └── source-detail # 2 column page displaying FHIR counts, and table listing FHIR resources for selected type
|
|
│ │ │ ├── services
|
|
│ │ │ │ ├── auth-interceptor.service.ts # service that looks for 401/403 API responses and triggers Logout
|
|
│ │ │ │ ├── is-authenticated-auth-guard.ts # service that checks if user is logged in
|
|
│ │ │ │ ├── fasten-api.service.ts # api service, used to commnunicate with Go backend (WILL BE REMOVED)
|
|
│ │ │ │ ├── fasten-db.service.ts # db service, used to communicate with CouchDB database
|
|
│ │ │ │ ├── lighthouse.service.ts # api service, used to communicate with auth-gateway (Lighthouse)
|
|
│ │ │ │ └── toast.service.ts # notifications service, used to send notifications
|
|
│ │ │ └── workers
|
|
│ │ │ ├── queue.service.spec.ts
|
|
│ │ │ ├── queue.service.ts # queue service, used to coordinate background work
|
|
│ │ │ └── source-sync.worker.ts # background job (web-worker) that syncs all FHIR resources from healthcare provider
|
|
│ │ ├── lib # root directory for libraries
|
|
│ │ │ ├── README.md
|
|
│ │ │ ├── conduit # Conduit Library - HealthCare provider communication layer (FHIR protocol)
|
|
│ │ │ │ ├── fhir # contains healthcare provider specific FHIR clients
|
|
│ │ │ ├── database # Database Library - PouchDB/CouchDB client, compatible with web-worker and browser env
|
|
│ │ │ │ ├── plugins
|
|
│ │ │ │ └── pouchdb_repository.ts
|
|
│ │ │ ├── models
|
|
│ │ │ │ ├── database # Classes used to store data in CouchDB
|
|
│ │ │ │ ├── fasten
|
|
│ │ │ │ └── lighthouse # Classes used to communicate with Lighthouse API
|
|
│ │ │ └── utils
|
|
│ │ ├── styles.scss # Main sylesheet
|
|
```
|
|
|
|
## Backend
|
|
|
|
The backend is incredibly simple (by design). The hope is to remove it completely if possible, allowing Fasten to be served by
|
|
a CDN or minimal Nginx deployment.
|
|
|
|
```tree
|
|
├── backend
|
|
│ ├── cmd
|
|
│ └── pkg
|
|
│ ├── config
|
|
│ ├── database # contains CouchDB client, allowing creation of new Users (and associated databases)
|
|
│ ├── errors
|
|
│ ├── models
|
|
│ └── web
|
|
│ ├── handler # contains code for API endpoints
|
|
│ │ ├── auth.go # authentication endpoints (create new user)
|
|
│ │ ├── cors_proxy.go # CORS proxy/relay for communicating with healthcare providers who do not support CORS
|
|
│ │ ├── couchdb_proxy.go # reverse proxy for CouchDB api, allowing for database API to be exposed (with limitations)
|
|
│ │ └── metadata.go # API endpoint returning metadata for healthcare providers
|
|
```
|
|
|
|
## Distribution/Docker
|
|
|
|
```tree
|
|
├── docker-compose.yml # docker-compose file which can be used to compile and run "all-in-one" image
|
|
├── Dockerfile # dockerfile for "all-in-one" image, containing frontend, backend & database
|
|
├── docker
|
|
│ ├── README.md
|
|
│ ├── couchdb
|
|
│ │ ├── Dockerfile # dockerfile for "couchdb" only image, used for development
|
|
│ │ └── local.ini
|
|
│ └── rootfs # filesystem configs, used in Dockerfiles to setup s6-overlay service manager
|
|
│ └── etc
|
|
│ ├── cont-init.d
|
|
│ │ ├── 01-timezone
|
|
│ │ └── 50-couchdb-init
|
|
│ └── services.d
|
|
│ ├── couchdb
|
|
│ └── fasten
|
|
|
|
```
|
|
|
|
# FAQ
|
|
|
|
### How do I run individual frontend tests?
|
|
|
|
- ng test --include='**/base_client.spec.ts'
|
|
- ng test --include='lib/**/*.spec.ts'
|
|
|
|
|
|
### How do I change the default encryption key and admin credentials
|
|
- FASTEN_ISSUER_JWT_KEY
|
|
|
|
|
|
### Generate JWT for local use
|
|
```bash
|
|
curl -X POST http://localhost:9090/api/auth/signup -H 'Content-Type: application/json' -d '{"username":"user1","password":"user1"}'
|
|
|
|
curl -X POST http://localhost:9090/api/auth/signin -H 'Content-Type: application/json' -d '{"username":"user1","password":"user1"}'
|
|
|
|
|
|
curl -H "Authorization: Bearer ${JWT_TOKEN_HERE}" http://localhost:5984/_session
|
|
|
|
```
|
|
|
|
|
|
# Run Component Storybook
|
|
```bash
|
|
ng run fastenhealth:storybook
|
|
```
|
|
|
|
|
|
# Access Encrypted SQLite Database with IntelliJ
|
|
|
|
- Download the latest `sqlite-jdbc-crypt` jar from https://github.com/Willena/sqlite-jdbc-crypt/releases
|
|
- Open IntelliJ -> Data Source Properties -> Driver Tab
|
|
- Find & Select `Sqlite` -> Right Click -> Duplicate
|
|
- Rename to `Sqlite (Encrypted)`
|
|
- Find `Driver Files` -> Select `sqlite-jdbc-crypt` jar that you downloaded previously
|
|
- Remove `Xerial Sqlite JDBC` jar
|
|
- Click `Apply` -> Click `OK`
|
|
- Create New Data Source -> Select `Sqlite (Encrypted)` -> Change Connection Type to `Url only`
|
|
- Specify the following connection url: `jdbc:sqlite:fasten.db?cipher=sqlcipher&legacy=3&hmac_use=0&kdf_iter=4000&legacy_page_size=1024&key=123456789012345678901234567890`
|
|
- Replace `key` with the encryption key specified in your config file (`database.encryption_key`)
|
|
- Click `Test Connection` -> Should be successful
|
|
- Click `Apply` -> Click `OK`
|
|
|
|
# Flush SQLite Write-Ahead-Log (WAL) to Database
|
|
|
|
```sqlite
|
|
PRAGMA wal_checkpoint(TRUNCATE);
|
|
```
|
|
|
|
See: https://sqlite.org/forum/info/fefd56014e2135589ea57825b0e2aa3e2df5daf53b5e41aa6a9d8f0c29d0b8e5
|
|
TODO: check if https://www.sqlite.org/pragma.html#pragma_wal_checkpoint can be used to do this automatically.
|