server: implement a REST webservice to query network paths, #29

bionetdb-server/src/main/java/org/opencb/bionetdb/server/rest/PathWSServer.java

@@ -0,0 +1,55 @@
+package org.opencb.bionetdb.server.rest;
+
+import io.swagger.annotations.Api;
+import io.swagger.annotations.ApiOperation;
+import org.opencb.bionetdb.core.api.NetworkDBAdaptor;
+import org.opencb.bionetdb.core.api.NetworkPathIterator;
+import org.opencb.bionetdb.core.neo4j.Neo4JNetworkDBAdaptor;
+import org.opencb.bionetdb.core.network.NetworkPath;
+import org.opencb.bionetdb.server.exception.VersionException;
+import org.opencb.commons.datastore.core.QueryResult;
+
+import javax.servlet.http.HttpServletRequest;
+import javax.ws.rs.*;
+import javax.ws.rs.core.Context;
+import javax.ws.rs.core.Response;
+import javax.ws.rs.core.UriInfo;
+import java.util.ArrayList;
+import java.util.List;
+
+/**
+ * Created by jtarraga on 13/03/18.
+ */
+@Path("/{apiVersion}/path")
+@Produces("application/json")
+@Api(value = "Path", position = 1, description = "Methods for working with network paths")
+public class PathWSServer extends GenericRestWSServer {
+
+    public PathWSServer(@PathParam("apiVersion") String apiVersion, @Context UriInfo uriInfo,
+                        @Context HttpServletRequest hsr) throws VersionException {
+        super(apiVersion, uriInfo, hsr);
+    }
+
+    @GET
+    @Path("/cypher")
+    @ApiOperation(httpMethod = "GET", value = "Get network path by Cypher statement")
+    public Response getNetworkPathByCypher(@QueryParam("cypher") String cypher) {
+        try {
+            logger.info(cypher);
+
+            NetworkDBAdaptor networkDBAdaptor = new Neo4JNetworkDBAdaptor(database, bioNetDBConfiguration);
+            NetworkPathIterator iterator = networkDBAdaptor.networkPathIterator(cypher);
+            List<NetworkPath> networkPaths = new ArrayList<>();
+            while (iterator.hasNext()) {
+                NetworkPath networkPath = iterator.next();
+                networkPaths.add(networkPath);
+            }
+            QueryResult<NetworkPath> queryResult = new QueryResult<>(null, 0, networkPaths.size(), networkPaths.size(),
+                    null, null, networkPaths);
+            networkDBAdaptor.close();
+            return createOkResponse(queryResult);
+        } catch (Exception e) {
+            return createErrorResponse(e);
+        }
+    }
+}

pom.xml

@@ -217,7 +217,7 @@
                 <BIONETDB.DB.HOST>localhost</BIONETDB.DB.HOST>
                 <BIONETDB.DB.PORT>7687</BIONETDB.DB.PORT>
                 <BIONETDB.DB.USER>neo4j</BIONETDB.DB.USER>
-                <BIONETDB.DB.PASSWORD>neo4j</BIONETDB.DB.PASSWORD>
+                <BIONETDB.DB.PASSWORD>neo4j;</BIONETDB.DB.PASSWORD>
             </properties>
         </profile>