package org.gcube.data.analysis.nlphub; import java.io.BufferedReader; import java.io.IOException; import java.io.InputStreamReader; import java.io.PrintWriter; import java.net.HttpURLConnection; import java.net.URL; import java.util.Arrays; import javax.servlet.ServletException; import javax.servlet.annotation.WebServlet; import javax.servlet.http.HttpServlet; import javax.servlet.http.HttpServletRequest; import javax.servlet.http.HttpServletResponse; import javax.xml.parsers.DocumentBuilderFactory; import org.gcube.data.analysis.nlphub.legacy.JsonManager; import org.gcube.data.analysis.nlphub.nlp.NlpAsyncNerRunner; import org.gcube.data.analysis.nlphub.nlp.RunnerCommander; import org.gcube.data.analysis.nlphub.session.SessionUtils; import org.slf4j.Logger; import org.slf4j.LoggerFactory; import org.w3c.dom.Document; import org.w3c.dom.Node; import org.w3c.dom.NodeList; import org.xml.sax.InputSource; /** * Servlet implementation class NLPHub */ @WebServlet(asyncSupported = true, name = "NLPServlet", urlPatterns = { "/nlphub-servlet" }) public class NLPHub extends HttpServlet { private static final long serialVersionUID = 1L; private static final Logger logger = LoggerFactory.getLogger(NLPHub.class); /** * @see HttpServlet#HttpServlet() */ public NLPHub() { super(); // TODO Auto-generated constructor stub } /** * @see HttpServlet#doGet(HttpServletRequest request, HttpServletResponse * response) */ protected void doGet(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { doWork(request, response); } /** * @see HttpServlet#doPost(HttpServletRequest request, HttpServletResponse * response) */ protected void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { doWork(request, response); } private void doWork(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { logger.debug("NLPHub"); String token = SessionUtils.getToken(request); if (request.getParameter("getInfo") != null) { getAlgorithmInfo(request, response, token); } else { runAlgorithms(request, response, token); } logger.debug("NLPHub work done"); } private void getAlgorithmInfo(HttpServletRequest request, HttpServletResponse response, String token) throws ServletException, IOException { try { String dataMiner = request.getParameter("dataminer"); //dataMiner=java.net.URLDecoder.decode(dataMiner,"UTF-8"); String algId = request.getParameter("algId"); logger.debug("NLPHub getAlgorithmInfo: [DataMiner="+dataMiner+", algorithmID="+algId+"]"); HttpURLConnection connection = null; BufferedReader r = null; String algAbsrtact = ""; PrintWriter writer = response.getWriter(); response.setContentType("application/json;charset=UTF-8"); try { String finalUrl = "https://" + dataMiner + NlpAsyncNerRunner.WPS_DESCRIBE_PROCESS_URL+"&lang=en-US&Identifier=" + algId; logger.debug("Request url: "+finalUrl); finalUrl+="&gcube-token=" + token; URL url = new URL(finalUrl); connection = (HttpURLConnection) url.openConnection(); connection.setDoInput(true); connection.setDoOutput(true); connection.setUseCaches(false); connection.setRequestMethod("GET"); r = new BufferedReader(new InputStreamReader(connection.getInputStream())); Document doc = DocumentBuilderFactory.newInstance().newDocumentBuilder().parse(new InputSource(r)); doc.getDocumentElement().normalize(); NodeList nListInput = doc.getElementsByTagName("ows:Abstract"); if (nListInput.getLength() <= 0) { algAbsrtact = "No description."; writer.println(new JsonManager().getErrorJsonResponse(algAbsrtact)); } else { Node nodeAbstract = nListInput.item(0); algAbsrtact = nodeAbstract.getTextContent(); writer.println(new JsonManager().getSuccessJsonResponse("" + algAbsrtact)); } writer.close(); } catch (Exception e) { logger.error("NLPHub error in GET algorithmInfo: "+e.getLocalizedMessage(),e); writer.println(new JsonManager().getErrorJsonResponse("" + e.getLocalizedMessage())); writer.close(); } finally { try { if (r != null) r.close(); if (connection != null) connection.disconnect(); } catch (Exception e) { logger.error("NLPHub error in GET algorithmInfo: "+e.getLocalizedMessage(),e); } } } catch (Exception e) { logger.error("NLPHub error in GET algorithmInfo: "+e.getLocalizedMessage(),e); } } private void runAlgorithms(HttpServletRequest request, HttpServletResponse response, String token) throws ServletException, IOException { try { String dataMiner = request.getParameter("dataminer"); //dataMiner=java.net.URLDecoder.decode(dataMiner,"UTF-8"); String[] algs = request.getParameter("algs").split(","); String plink=request.getParameter("plink"); String annotations=request.getParameter("annotations"); logger.debug("NLPHub getAlgorithmInfo: [DataMiner="+dataMiner+", plink="+plink+ ", annotations="+annotations+", algorithms="+Arrays.toString(algs)+"]"); for (int i = 0; i < algs.length; i++) { algs[i] = algs[i].trim(); } String maxWaitingTime= getServletConfig().getInitParameter("MaxWaitingTime"); String sleepTime= getServletConfig().getInitParameter("SleepTime"); logger.debug("NLPHub: [maxWaitingTime="+maxWaitingTime+", sleepTime="+sleepTime+"]"); long maxWaitingTimeL=Long.parseLong(maxWaitingTime); long sleepTimeL=Long.parseLong(sleepTime); RunnerCommander commander = new RunnerCommander(dataMiner, algs,plink , annotations, token, response); commander.setSleepTime(sleepTimeL); commander.setMaxWaitingTime(maxWaitingTimeL); commander.startProcess(); } catch (Exception e) { logger.error("NLPHub runAlgorithms: "+e.getLocalizedMessage(), e); } } }