Merge pull request #12 from elixir-europe/docker-integration

add correct dockerfile and start script

Dockerfile

-FROM node:carbon
+FROM node:12.22.0-buster
 
 # Create app directory
 WORKDIR /usr/src/app
 
-# Install app dependencies
-# A wildcard is used to ensure both package.json AND package-lock.json are copied
-# where available (npm@5+)
 COPY package*.json ./
+COPY ./start.sh /
 
 RUN npm install
 
 # Bundle app source
 COPY . .
 
-EXPOSE 3000
-CMD [ "npm", "start" ]
\ No newline at end of file
+ENTRYPOINT ["/start.sh"]
\ No newline at end of file

README.md

@@ -371,6 +371,23 @@ JSON object:
 }
 ```
 
+## Running in Docker
+Dockerized version of BioValidator is available in [quay.io](https://quay.io/repository/ebi-ait/biovalidator). 
+These images can be used to run the validator without cloning this repository. 
+
+Pull docker image from [quay.io](https://quay.io/repository/ebi-ait/biovalidator)
+```shell
+docker pull quay.io/ebi-ait/biovalidator:1.0.0
+```
+Run in server mode
+```shell
+docker run -p 3020:3020 -d quay.io/ebi-ait/biovalidator:1.0.0 --server
+```
+Run in onetime mode
+```shell
+docker run quay.io/ebi-ait/biovalidator:1.0.0 --schema /path/to/schema.json --json /path/to/json.json
+```
+
 
 ## License
  For more details about licensing see the [LICENSE](LICENSE.md).

package-lock.json

 {
-  "name": "json-schema-validator",
-  "version": "1.8.0",
+  "name": "biovalidator",
+  "version": "1.9.0",
   "lockfileVersion": 1,
   "requires": true,
   "dependencies": {

package.json

 {
-  "name": "json-schema-validator",
-  "version": "1.8.0",
+  "name": "biovalidator",
+  "version": "1.9.0",
   "description": "A nodejs JSON schema validator service.",
   "main": "src/server.js",
-  "repository": "https://github.com/EMBL-EBI-SUBS/json-schema-validator.git",
+  "repository": "https://github.com/elixir-europe/biovalidator.git",
   "scripts": {
     "start": "node src/server.js",
     "test": "jest",

start.sh

+#!/bin/bash
+
+server=false
+while [ $# -gt 0 ]; do
+  case "$1" in
+    --server)
+      server=true
+      ;;
+    --schema)
+      schema="$2"
+      shift
+      ;;
+    --json)
+      json="$2"
+      shift
+      ;;
+    *)
+      printf "*********************************************************************************\n"
+      printf "* Error, invalid arguments. Valid arguments are \n"
+      printf "* --server to run in server mode\n"
+      printf "* --schema /path/to/schema --json /path/to/json to validate json against schema \n"
+      printf "*********************************************************************************\n"
+      exit 1
+  esac
+  shift
+done
+
+if [ $server = true ]
+then
+  printf  "Running validator in server mode \n"
+  node src/server.js
+else
+  printf "Running validator in onetime validation mode with params schema=%s json=%s \n" "$schema" "$json"
+  node validator-cli.js --schema="$schema" --json="$json"
+fi
+