server: add cypher method to NodeWSServer

opencb · Mar 2, 2018 · dc3a31a · dc3a31a
1 parent 5e3a380
commit dc3a31a
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Showing 3 changed files with 28 additions and 9 deletions.
diff --git a/bionetdb-core/src/main/resources/configuration.yml b/bionetdb-core/src/main/resources/configuration.yml
@@ -13,5 +13,5 @@ databases:
   host: "localhost"
   port: "7688"
   user: "neo4j"
-  password: "neo4j"
+  password: "neo4j;"
   options: null
diff --git a/bionetdb-server/src/main/java/org/opencb/bionetdb/server/rest/NodeWSServer.java b/bionetdb-server/src/main/java/org/opencb/bionetdb/server/rest/NodeWSServer.java
@@ -1,26 +1,27 @@
 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.neo4j.Neo4JNetworkDBAdaptor;
+import org.opencb.bionetdb.core.network.Node;
 import org.opencb.bionetdb.server.exception.DatabaseException;
 import org.opencb.bionetdb.server.exception.VersionException;
 import org.opencb.commons.datastore.core.QueryResult;
 
 import javax.servlet.http.HttpServletRequest;
-import javax.ws.rs.GET;
-import javax.ws.rs.Path;
-import javax.ws.rs.PathParam;
-import javax.ws.rs.Produces;
+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.List;
 
 /**
  * Created by imedina on 06/10/15.
  */
 @Path("/{version}/node")
 @Produces("application/json")
+@Api(value = "Node", position = 1, description = "Methods for working with 'nodes'")
 public class NodeWSServer extends GenericRestWSServer {
 
     public NodeWSServer(@PathParam("version") String version, @Context UriInfo uriInfo,
@@ -29,9 +30,9 @@ public NodeWSServer(@PathParam("version") String version, @Context UriInfo uriIn
     }
 
     @GET
-    @Path("/{type}/cc")
-    @ApiOperation(httpMethod = "GET", value = "Get the object data model")
-    public Response getModel(@PathParam("type") String type) {
+    @Path("/{id}/info")
+    @ApiOperation(httpMethod = "GET", value = "Get Nodes by ID")
+    public Response getNodesById(@PathParam("id") String type) {
         try {
              NetworkDBAdaptor networkDBAdaptor = new Neo4JNetworkDBAdaptor(database, bioNetDBConfiguration);
 //            Query query = new Query("id", physicalEntity);
@@ -44,4 +45,22 @@ public Response getModel(@PathParam("type") String type) {
         }
     }
 
+    @GET
+    @Path("/cypher")
+    @ApiOperation(httpMethod = "GET", value = "Get Nodes by Cypher statement")
+    public Response getNodesByCypher(@QueryParam("cypher") String cypher) {
+        try {
+            NetworkDBAdaptor networkDBAdaptor = new Neo4JNetworkDBAdaptor(database, bioNetDBConfiguration);
+            List<Node> nodes = networkDBAdaptor.nodeQuery(cypher);
+            logger.info(cypher);
+            for (Node node: nodes) {
+                logger.info(node.toStringEx());
+            }
+            QueryResult<Node> queryResult = new QueryResult<>(null, 0, nodes.size(), nodes.size(), null, null, nodes);
+            networkDBAdaptor.close();
+            return createOkResponse(queryResult);
+        } catch (Exception e) {
+            return createErrorResponse(e);
+        }
+    }
 }
diff --git a/pom.xml b/pom.xml
@@ -204,7 +204,7 @@
                 <BIONETDB.CATALOG.DB.HOST>localhost</BIONETDB.CATALOG.DB.HOST>
                 <BIONETDB.CATALOG.DB.PORT>7687</BIONETDB.CATALOG.DB.PORT>
                 <BIONETDB.CATALOG.DB.USER>neo4j</BIONETDB.CATALOG.DB.USER>
-                <BIONETDB.CATALOG.DB.PASSWORD></BIONETDB.CATALOG.DB.PASSWORD>
+                <BIONETDB.CATALOG.DB.PASSWORD>neo4j;</BIONETDB.CATALOG.DB.PASSWORD>
             </properties>
         </profile>