353 lines
14 KiB
Java
Executable File
353 lines
14 KiB
Java
Executable File
package org.gcube.dataanalysis.seadatanet;
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import java.io.BufferedInputStream;
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import java.io.BufferedReader;
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import java.io.DataOutputStream;
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import java.io.File;
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import java.io.FileNotFoundException;
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import java.io.FileOutputStream;
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import java.io.FileReader;
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import java.io.IOException;
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import java.io.InputStream;
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import java.io.InputStreamReader;
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import java.io.StringReader;
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import java.net.HttpURLConnection;
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import java.net.URL;
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import java.net.URLConnection;
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import javax.xml.parsers.DocumentBuilder;
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import javax.xml.parsers.DocumentBuilderFactory;
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import javax.xml.parsers.ParserConfigurationException;
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import org.apache.commons.httpclient.HttpClient;
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import org.apache.commons.httpclient.methods.PostMethod;
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import org.apache.commons.httpclient.methods.multipart.FilePart;
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import org.apache.commons.httpclient.methods.multipart.MultipartRequestEntity;
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import org.apache.commons.httpclient.methods.multipart.Part;
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import org.apache.commons.httpclient.methods.multipart.StringPart;
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import org.gcube.contentmanagement.lexicalmatcher.utils.AnalysisLogger;
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import org.gcube.dataanalysis.ecoengine.configuration.AlgorithmConfiguration;
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import org.w3c.dom.Document;
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import org.w3c.dom.Node;
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import org.xml.sax.InputSource;
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import org.xml.sax.SAXException;
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public class DivaHTTPClient {
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public static String WEB_HTTP = "http://ec.oceanbrowser.net/emodnet/Python/web";
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public static String DOWN_FILE_NC = "/download?fieldname=";
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// -F "sessionid=your_session_id" -F uname=u -F vname=v -F
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// "data_vel=@/home/abarth/workspace/divaonweb-test-data/velocity/example123.nc"
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// -F "sessionid=your_session_id" -F uname=u -F vname=v -F
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// "data_vel=@/home/abarth/workspace/divaonweb-test-data/velocity/example123.nc"
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public static int postVelocityFiles(String id, String uname, String vname, File binaryFile) throws Exception {
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String url = WEB_HTTP + "/uploadvel";
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PostMethod post = new PostMethod(url);
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Part[] parts = new Part[] {
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new FilePart("data_vel",binaryFile),
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new StringPart("sessionid",id),
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new StringPart("uname",uname),
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new StringPart("vname",vname)
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};
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post.setRequestEntity(new MultipartRequestEntity(parts, post.getParams()));
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HttpClient client = new HttpClient();
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int response = client.executeMethod(post);
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AnalysisLogger.getLogger().debug("VELOCITY FILE POST Response:"+response);
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return response;
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}
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public static String postFile(File file) throws Exception {
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String crlf = "\r\n";
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String twoHyphens = "--";
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String boundary = "*****";
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HttpURLConnection httpUrlConnection = null;
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try {
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AnalysisLogger.getLogger().debug("Sending file ...");
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URL url = new URL(WEB_HTTP + "/upload");
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httpUrlConnection = (HttpURLConnection) url.openConnection();
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httpUrlConnection.setUseCaches(false);
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httpUrlConnection.setDoOutput(true);
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httpUrlConnection.setRequestMethod("POST");
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httpUrlConnection.setRequestProperty("Connection", "Keep-Alive");
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httpUrlConnection.setRequestProperty("Cache-Control", "no-cache");
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httpUrlConnection.setRequestProperty("Content-Type", "multipart/form-data;boundary=" + boundary);
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DataOutputStream request = new DataOutputStream(httpUrlConnection.getOutputStream());
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request.writeBytes("--" + boundary + crlf);
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request.writeBytes("Content-Disposition: form-data; name=\"data" + "\";filename=\"" + file.getName() + "\"" + crlf);
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request.writeBytes(crlf);
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BufferedReader reader = new BufferedReader(new FileReader(file));
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String lineString = reader.readLine();
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while (lineString != null) {
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request.writeBytes(lineString + "\n");
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lineString = reader.readLine();
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}
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reader.close();
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request.writeBytes(crlf);
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request.writeBytes(twoHyphens + boundary + twoHyphens + crlf);
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request.flush();
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request.close();
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InputStream responseStream = new BufferedInputStream(httpUrlConnection.getInputStream());
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BufferedReader responseStreamReader = new BufferedReader(new InputStreamReader(responseStream));
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String line = "";
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StringBuilder stringBuilder = new StringBuilder();
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while ((line = responseStreamReader.readLine()) != null) {
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stringBuilder.append(line).append("\n");
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}
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responseStreamReader.close();
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String response = stringBuilder.toString();
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responseStream.close();
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httpUrlConnection.disconnect();
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return response;
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} catch (IOException e) {
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throw new Exception(e);
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} finally {
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if (httpUrlConnection != null)
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httpUrlConnection.disconnect();
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}
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}
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/**
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* sessionid id from previous upload len correlation length (arc degrees)
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* stn signal to noise ratio (non-dimensional) x0,x1,dx first and last
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* longitude values and resolution of the grid y0,y1,dy idem for latitude
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* level depth level
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*/
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public static DivaAnalysisGetResponse getAnalysis(String id, double len, double stn, double x0, double x1, double dx, double y0, double y1, double dy, double level) throws Exception {
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return getAnalysis(id, len, stn, x0, x1, dx, y0, y1, dy, level, false,0);
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}
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public static DivaAnalysisGetResponse getAnalysis(String id, double len, double stn, double x0, double x1, double dx, double y0, double y1, double dy, double level, Boolean useCurrents, int currentsWeight) throws Exception {
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HttpURLConnection httpUrlConnection = null;
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try {
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String get_url = WEB_HTTP + "/make_analysis?";
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get_url += "sessionid=" + id + "&";
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get_url += "len=" + len + "&";
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get_url += "stn=" + stn + "&";
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get_url += "x0=" + x0 + "&";
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get_url += "x1=" + x1 + "&";
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get_url += "dx=" + dx + "&";
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get_url += "y0=" + y0 + "&";
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get_url += "y1=" + y1 + "&";
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get_url += "dy=" + dy + "&";
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get_url += "level=" + level + "";
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if (useCurrents)
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get_url += "&adv="+currentsWeight;
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// System.out.println("GET URL="+get_url);
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AnalysisLogger.getLogger().debug("Get URL to sent: \n" + get_url);
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URL url = new URL(get_url);
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httpUrlConnection = (HttpURLConnection) url.openConnection();
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httpUrlConnection.setUseCaches(false);
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httpUrlConnection.setDoOutput(true);
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httpUrlConnection.setRequestMethod("GET");
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httpUrlConnection.setRequestProperty("Connection", "Keep-Alive");
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httpUrlConnection.setRequestProperty("Cache-Control", "no-cache");
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InputStream responseStream = new BufferedInputStream(httpUrlConnection.getInputStream());
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BufferedReader responseStreamReader = new BufferedReader(new InputStreamReader(responseStream));
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String line = "";
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StringBuilder stringBuilder = new StringBuilder();
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while ((line = responseStreamReader.readLine()) != null) {
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stringBuilder.append(line).append("\n");
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}
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responseStreamReader.close();
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String response = stringBuilder.toString();
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// System.out.println("RESPONSE STRING: "+response);
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AnalysisLogger.getLogger().debug("Response from DIVA Analysis: \n" + response);
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Document doc = loadXMLFromString(response);
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Node idNode = doc.getElementsByTagName("result").item(0);
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String identifier = idNode.getAttributes().item(0).getNodeValue();
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Double vmin = Double.parseDouble(doc.getElementsByTagName("stat").item(0).getTextContent());
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Double vmax = Double.parseDouble(doc.getElementsByTagName("stat").item(1).getTextContent());
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Integer stat_obs_count_used = Integer.parseInt(doc.getElementsByTagName("stat").item(2).getTextContent());
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Double stat_posteriori_stn = Double.parseDouble(doc.getElementsByTagName("stat").item(3).getTextContent());
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responseStream.close();
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httpUrlConnection.disconnect();
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return new DivaAnalysisGetResponse(identifier, vmin, vmax, stat_obs_count_used, stat_posteriori_stn);
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} catch (IOException e) {
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throw new Exception(e);
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} finally {
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if (httpUrlConnection != null)
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httpUrlConnection.disconnect();
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}
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}
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public static DivaFitResponse getFit(String id) throws Exception {
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HttpURLConnection httpUrlConnection = null;
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try {
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String get_url = WEB_HTTP + "/fit?";
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get_url += "sessionid=" + id;
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System.out.println("GET FIT URL=" + get_url);
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URL url = new URL(get_url);
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httpUrlConnection = (HttpURLConnection) url.openConnection();
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httpUrlConnection.setUseCaches(false);
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httpUrlConnection.setDoOutput(true);
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httpUrlConnection.setRequestMethod("GET");
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httpUrlConnection.setRequestProperty("Connection", "Keep-Alive");
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httpUrlConnection.setRequestProperty("Cache-Control", "no-cache");
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InputStream responseStream = new BufferedInputStream(httpUrlConnection.getInputStream());
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BufferedReader responseStreamReader = new BufferedReader(new InputStreamReader(responseStream));
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String line = "";
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StringBuilder stringBuilder = new StringBuilder();
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while ((line = responseStreamReader.readLine()) != null) {
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stringBuilder.append(line).append("\n");
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}
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responseStreamReader.close();
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String response = stringBuilder.toString();
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// System.out.println("RESPONSE STRING: "+response);
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AnalysisLogger.getLogger().debug("Response from DIVA Fit: \n" + response);
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Document doc = loadXMLFromString(response);
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Double length_scale = Double.parseDouble(doc.getElementsByTagName("stat").item(0).getTextContent());
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Double signal_to_noise = Double.parseDouble(doc.getElementsByTagName("stat").item(1).getTextContent());
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Double variance_of_background = Double.parseDouble(doc.getElementsByTagName("stat").item(2).getTextContent());
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Double fit_quality = Double.parseDouble(doc.getElementsByTagName("stat").item(3).getTextContent());
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String plot = (doc.getElementsByTagName("plot").item(0).getTextContent());
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responseStream.close();
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httpUrlConnection.disconnect();
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return new DivaFitResponse(id, length_scale, signal_to_noise, variance_of_background, fit_quality, plot);
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} catch (IOException e) {
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throw new Exception(e);
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} finally {
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if (httpUrlConnection != null)
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httpUrlConnection.disconnect();
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}
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}
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public static DivaFilePostResponse uploadFile(File file) throws Exception, IOException, ParserConfigurationException, SAXException {
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String result_xml = null;
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try {
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result_xml = postFile(file);
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} catch (Exception e) {
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e.printStackTrace();
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}
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if (result_xml == null) {
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throw new SAXException("Error in HTTP response no response element found!");
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}
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// Create Document object by XMLResponse
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Document doc = loadXMLFromString(result_xml);
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// Print XML Response
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AnalysisLogger.getLogger().debug("DIVA XML Response: \n" + result_xml);
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Node root = doc.getDocumentElement();
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if (root == null)
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throw new SAXException("Error in HTTP response no root element found!");
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Integer obs_count = null;
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try {
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obs_count = Integer.parseInt(root.getChildNodes().item(1).getTextContent());
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} catch (NullPointerException pe) {
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throw new Exception("Error in uploading file to DIVA - Possibly non uniformly filled table!");
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}
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Double obs_x0 = Double.parseDouble(root.getChildNodes().item(3).getTextContent());
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Double obs_x1 = Double.parseDouble(root.getChildNodes().item(5).getTextContent());
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Double obs_y0 = Double.parseDouble(root.getChildNodes().item(7).getTextContent());
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Double obs_y1 = Double.parseDouble(root.getChildNodes().item(9).getTextContent());
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Double obs_v0 = Double.parseDouble(root.getChildNodes().item(11).getTextContent());
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Double obs_v1 = Double.parseDouble(root.getChildNodes().item(13).getTextContent());
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String sessionid = root.getChildNodes().item(15).getTextContent();
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return new DivaFilePostResponse(obs_x0, obs_x1, obs_y0, obs_y1, obs_v0, obs_v1, obs_count, sessionid);
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}
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public static void downloadFileDiva(String fileid, String destinationFile) throws Exception {
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try {
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String fileurl = DivaHTTPClient.WEB_HTTP + DivaHTTPClient.DOWN_FILE_NC + fileid;
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URL smpFile = new URL(fileurl);
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URLConnection uc = (URLConnection) smpFile.openConnection();
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InputStream is = uc.getInputStream();
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AnalysisLogger.getLogger().debug("Retrieving DIVA file from " + fileurl + " to :" + destinationFile);
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inputStreamToFile(is, destinationFile);
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is.close();
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} catch (Exception e) {
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throw e;
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}
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}
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public static void inputStreamToFile(InputStream is, String path) throws FileNotFoundException, IOException {
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FileOutputStream out = new FileOutputStream(new File(path));
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byte buf[] = new byte[1024];
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int len = 0;
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while ((len = is.read(buf)) > 0)
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out.write(buf, 0, len);
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out.close();
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}
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public static void main(String[] args) throws Exception {
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AnalysisLogger.setLogger("cfg/" + AlgorithmConfiguration.defaultLoggerFile);
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DivaFilePostResponse response = uploadFile(new File("resources" + File.separator + "files" + File.separator + "temperature_argo.txt"));
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// System.out.println(getAnalysis(response.getSessionid(),5,4,76,78,1,35,78,1,2));
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System.out.println("" + response);
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DivaAnalysisGetResponse respAnalysis = getAnalysis(response.getSessionid(), 10, 0.8, -180, 180, 3, -80, 80, 3, 1);
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System.out.println("Response: " + respAnalysis.toString());
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// Downloader downFileNC = new Downloader();
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// System.out.println(System.getProperty("user.dir")+File.separator+"temp.nc");
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File f = new File(System.getProperty("user.dir") + File.separator + "temp.nc");
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if (!f.exists())
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f.createNewFile();
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downloadFileDiva(WEB_HTTP + DOWN_FILE_NC + respAnalysis.getIdentifier(), System.getProperty("user.dir") + File.separator + "temp.nc");
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}
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// PARSER XML
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private static Document loadXMLFromString(String xml) throws ParserConfigurationException, SAXException, IOException {
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DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance();
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DocumentBuilder builder = factory.newDocumentBuilder();
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InputSource is = new InputSource(new StringReader(xml));
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return builder.parse(is);
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}
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}
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