label int64 0 1 | func1 stringlengths 173 53.1k | func2 stringlengths 173 53.1k | id int64 0 901k |
|---|---|---|---|
1 | @Transient private String md5sum(String text) { try { MessageDigest md = MessageDigest.getInstance("MD5"); md.reset(); md.update(text.getBytes()); byte messageDigest[] = md.digest(); return bufferToHex(messageDigest, 0, messageDigest.length); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } return null; } | public void updateChecksum() { try { MessageDigest md = MessageDigest.getInstance("SHA"); List<Parameter> sortedKeys = new ArrayList<Parameter>(parameter_instances.keySet()); for (Parameter p : sortedKeys) { if (parameter_instances.get(p) != null && !(parameter_instances.get(p) instanceof OptionalDomain.OPTIONS) && !(parameter_instances.get(p).equals(FlagDomain.FLAGS.OFF))) { md.update(parameter_instances.get(p).toString().getBytes()); } } this.checksum = md.digest(); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } } | 19,000 |
1 | public void run() { BufferedReader inp = null; try { String urlString = "http://www.hubtracker.com/query.php?action=add&username=" + user + "&password=" + pass + "&email=" + e_mail + "&address=" + Vars.Hub_Host; URL url = new URL(urlString); URLConnection conn; if (!Vars.Proxy_Host.equals("")) conn = url.openConnection(new Proxy(Proxy.Type.HTTP, new InetSocketAddress(Vars.Proxy_Host, Vars.Proxy_Port))); else conn = url.openConnection(); conn.setDoInput(true); conn.setDoOutput(true); conn.connect(); inp = new BufferedReader(new InputStreamReader(conn.getInputStream())); String xx; while ((xx = inp.readLine()) != null) PluginMain.result += "\n" + xx; if (curCmd != null) this.curCmd.cur_client.sendFromBot("[hubtracker:] " + PluginMain.result); else PluginMain.curFrame.showMsg(); inp.close(); inp = null; } catch (MalformedURLException ue) { PluginMain.result = ue.toString(); } catch (Exception e) { PluginMain.result = e.toString(); } done = true; } | public String getHtmlCode(String urlString) { StringBuffer result = new StringBuffer(); BufferedReader in = null; try { URL url = new URL((urlString)); URLConnection con = url.openConnection(); in = new BufferedReader(new InputStreamReader(con.getInputStream(), "ISO-8859-1")); String line = null; while ((line = in.readLine()) != null) { result.append(line + "\r\n"); } in.close(); } catch (MalformedURLException e) { System.out.println("Unable to connect to URL: " + urlString); } catch (IOException e) { System.out.println("IOException when connecting to URL: " + urlString); } finally { if (in != null) { try { in.close(); } catch (Exception ex) { System.out.println("Exception throws at finally close reader when connecting to URL: " + urlString); } } } return result.toString(); } | 19,001 |
0 | public static String remove_tag(String sessionid, String absolutePathForTheSpesificTag) { String resultJsonString = "some problem existed inside the create_new_tag() function if you see this string"; try { Log.d("current running function name:", "remove_tag"); HttpClient httpclient = new DefaultHttpClient(); HttpPost httppost = new HttpPost("https://mt0-app.cloud.cm/rpc/json"); List<NameValuePair> nameValuePairs = new ArrayList<NameValuePair>(2); nameValuePairs.add(new BasicNameValuePair("c", "Storage")); nameValuePairs.add(new BasicNameValuePair("m", "remove_tag")); nameValuePairs.add(new BasicNameValuePair("absolute_tags", absolutePathForTheSpesificTag)); httppost.setEntity(new UrlEncodedFormEntity(nameValuePairs)); httppost.setHeader("Cookie", "PHPSESSID=" + sessionid); HttpResponse response = httpclient.execute(httppost); resultJsonString = EntityUtils.toString(response.getEntity()); Log.d("jsonStringReturned:", resultJsonString); return resultJsonString; } catch (Exception e) { e.printStackTrace(); } return resultJsonString; } | public static void reset() throws Exception { Session session = DataStaticService.getHibernateSessionFactory().openSession(); try { Connection connection = session.connection(); try { Statement statement = connection.createStatement(); try { statement.executeUpdate("delete from Tag"); connection.commit(); } finally { statement.close(); } } catch (HibernateException e) { connection.rollback(); throw new Exception(e); } catch (SQLException e) { connection.rollback(); throw new Exception(e); } } catch (SQLException e) { throw new Exception(e); } finally { session.close(); } } | 19,002 |
1 | public static String hash(String plainText) throws Exception { MessageDigest m = MessageDigest.getInstance("MD5"); m.update(plainText.getBytes(), 0, plainText.length()); String hash = new BigInteger(1, m.digest()).toString(16); if (hash.length() == 31) { hash = "0" + hash; } return hash; } | public static final String Digest(String credentials, String algorithm, String encoding) { try { MessageDigest md = (MessageDigest) MessageDigest.getInstance(algorithm).clone(); if (encoding == null) { md.update(credentials.getBytes()); } else { md.update(credentials.getBytes(encoding)); } return (HexUtils.convert(md.digest())); } catch (Exception ex) { log.error(ex); return credentials; } } | 19,003 |
0 | public void elimina(Pedido pe) throws errorSQL, errorConexionBD { System.out.println("GestorPedido.elimina()"); int id = pe.getId(); String sql; Statement stmt = null; try { gd.begin(); sql = "DELETE FROM pedido WHERE id=" + id; System.out.println("Ejecutando: " + sql); stmt = gd.getConexion().createStatement(); stmt.executeUpdate(sql); System.out.println("executeUpdate"); gd.commit(); System.out.println("commit"); stmt.close(); } catch (SQLException e) { gd.rollback(); throw new errorSQL(e.toString()); } catch (errorConexionBD e) { System.err.println("Error en GestorPedido.elimina(): " + e); } catch (errorSQL e) { System.err.println("Error en GestorPedido.elimina(): " + e); } } | public static String get(String strUrl) { if (NoMuleRuntime.DEBUG) System.out.println("GET : " + strUrl); try { URL url = new URL(strUrl); URLConnection conn = url.openConnection(); BufferedReader in = new BufferedReader(new InputStreamReader(conn.getInputStream())); String s = ""; String sRet = ""; while ((s = in.readLine()) != null) { sRet += s; } NoMuleRuntime.showDebug("ANSWER: " + sRet); return sRet; } catch (MalformedURLException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } return ""; } | 19,004 |
1 | static ConversionMap create(String file) { ConversionMap out = new ConversionMap(); URL url = ConversionMap.class.getResource(file); try { BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); String line = in.readLine(); while (line != null) { if (line.length() > 0) { String[] arr = line.split("\t"); try { double value = Double.parseDouble(arr[1]); out.put(translate(lowercase(arr[0].getBytes())), value); out.defaultValue += value; out.length = arr[0].length(); } catch (NumberFormatException e) { throw new RuntimeException("Something is wrong with in conversion file: " + e); } } line = in.readLine(); } in.close(); out.defaultValue /= Math.pow(4, out.length); } catch (Exception e) { e.printStackTrace(); throw new RuntimeException("Their was an error while reading the conversion map: " + e); } return out; } | private String getLatestVersion(URL url) throws IOException { HttpURLConnection con = (HttpURLConnection) url.openConnection(); con.connect(); BufferedReader br = new BufferedReader(new InputStreamReader(new BufferedInputStream(con.getInputStream()))); String lines = ""; String line = null; while ((line = br.readLine()) != null) { lines += line; } con.disconnect(); return lines; } | 19,005 |
0 | public static Properties load(URL url) { if (url == null) { return new Properties(); } InputStream in = null; try { in = url.openStream(); Properties ret = new Properties(); ret.load(in); return ret; } catch (IOException e) { throw new RuntimeException(e); } finally { if (in != null) { try { in.close(); } catch (IOException e) { LOG.error("Error closing", e); } } } } | public static void download(URL url, File file, String userAgent) throws IOException { URLConnection conn = url.openConnection(); if (userAgent != null) { conn.setRequestProperty("User-Agent", userAgent); } InputStream in = conn.getInputStream(); FileOutputStream out = new FileOutputStream(file); StreamUtil.copyThenClose(in, out); } | 19,006 |
0 | public static String stringOfUrl(String addr) throws IOException { ByteArrayOutputStream output = new ByteArrayOutputStream(); System.out.println("test"); URL url = new URL(addr); System.out.println("test2"); IOUtils.copy(url.openStream(), output); return output.toString(); } | public String getMD5Str(String str) { MessageDigest messageDigest = null; String mdStr = null; try { messageDigest = MessageDigest.getInstance("MD5"); messageDigest.reset(); messageDigest.update(str.getBytes("UTF-8")); } catch (NoSuchAlgorithmException e) { System.out.println("NoSuchAlgorithmException caught!"); System.exit(-1); } catch (UnsupportedEncodingException e) { e.printStackTrace(); } byte[] byteArray = messageDigest.digest(); StringBuffer md5StrBuff = new StringBuffer(); for (int i = 0; i < byteArray.length; i++) { if (Integer.toHexString(0xFF & byteArray[i]).length() == 1) md5StrBuff.append("0").append(Integer.toHexString(0xFF & byteArray[i])); else md5StrBuff.append(Integer.toHexString(0xFF & byteArray[i])); } mdStr = md5StrBuff.toString(); return mdStr; } | 19,007 |
0 | @Test public void testDocumentDownloadKnowledgeBase() throws IOException { if (uploadedKbDocumentID == null) { fail("Document Upload Test should run first"); } String downloadLink = GoogleDownloadLinkGenerator.generateTextDownloadLink(uploadedKbDocumentID); URL url = new URL(downloadLink); URLConnection urlConnection = url.openConnection(); urlConnection.connect(); InputStream input = url.openStream(); FileWriter fw = new FileWriter("tmpOutput.kb"); Reader reader = new InputStreamReader(input); BufferedReader bufferedReader = new BufferedReader(reader); String strLine = ""; int count = 0; while (count < 10000) { strLine = bufferedReader.readLine(); if (strLine != null && strLine != "") { fw.write(strLine); } count++; } } | public void zip_compressFiles() throws Exception { FileInputStream in = null; File f1 = new File("C:\\WINDOWS\\regedit.exe"); File f2 = new File("C:\\WINDOWS\\win.ini"); File file = new File("C:\\" + NTUtil.class.getName() + ".zip"); ZipOutputStream out = new ZipOutputStream(new FileOutputStream(file)); out.putNextEntry(new ZipEntry("regedit.exe")); in = new FileInputStream(f1); while (in.available() > 0) { out.write(in.read()); } in.close(); out.closeEntry(); out.putNextEntry(new ZipEntry("win.ini")); in = new FileInputStream(f2); while (in.available() > 0) { out.write(in.read()); } in.close(); out.closeEntry(); out.close(); } | 19,008 |
0 | public static void copyFile(File in, File outDir) throws IOException { FileChannel sourceChannel = null; FileChannel destinationChannel = null; try { sourceChannel = new FileInputStream(in).getChannel(); File out = new File(outDir, in.getName()); destinationChannel = new FileOutputStream(out).getChannel(); sourceChannel.transferTo(0, sourceChannel.size(), destinationChannel); } finally { try { if (sourceChannel != null) { sourceChannel.close(); } } finally { if (destinationChannel != null) { destinationChannel.close(); } } } } | public static String download(String address, String outputFolder) { URL url = null; String fileName = ""; try { url = new URL(address); System.err.println("Indirizzo valido!"); } catch (MalformedURLException ex) { System.err.println("Indirizzo non valido!"); } try { HttpURLConnection connection = (HttpURLConnection) url.openConnection(); connection.setRequestProperty("Range", "bytes=0-"); connection.connect(); int contentLength = connection.getContentLength(); if (contentLength < 1) { System.err.println("Errore, c'e' qualcosa che non va!"); return ""; } fileName = url.getFile(); fileName = fileName.substring(url.getFile().lastIndexOf('/') + 1); RandomAccessFile file = new RandomAccessFile(outputFolder + fileName, "rw"); file.seek(0); InputStream stream = connection.getInputStream(); byte[] buffer = new byte[1024]; while (true) { int read = stream.read(buffer); if (read == -1) { break; } file.write(buffer, 0, read); } file.close(); } catch (IOException ioe) { System.err.println("I/O error!"); } return outputFolder + fileName; } | 19,009 |
1 | public static File writeInternalFile(Context cx, URL url, String dir, String filename) { FileOutputStream fos = null; File fi = null; try { fi = newInternalFile(cx, dir, filename); fos = FileUtils.openOutputStream(fi); int length = IOUtils.copy(url.openStream(), fos); log(length + " bytes copyed."); } catch (IOException e) { AIOUtils.log("", e); } finally { try { fos.close(); } catch (IOException e) { AIOUtils.log("", e); } } return fi; } | public void update() { if (!updatable) { Main.fenetre().erreur(Fenetre.OLD_VERSION); return; } try { Main.fenetre().update(); Element remoteRoot = new SAXBuilder().build(xml).getRootElement(); addPackages = new HashMap<Integer, PackageVersion>(); Iterator<?> iterElem = remoteRoot.getChildren().iterator(); while (iterElem.hasNext()) { PackageVersion pack = new PackageVersion((Element) iterElem.next()); addPackages.put(pack.id(), pack); } removePackages = new HashMap<Integer, PackageVersion>(); iterElem = root.getChildren("package").iterator(); while (iterElem.hasNext()) { PackageVersion pack = new PackageVersion((Element) iterElem.next()); int id = pack.id(); if (!addPackages.containsKey(id)) { removePackages.put(id, pack); } else if (addPackages.get(id).version().equals(pack.version())) { addPackages.remove(id); } else { addPackages.get(id).ecrase(); } } Iterator<PackageVersion> iterPack = addPackages.values().iterator(); while (iterPack.hasNext()) { install(iterPack.next()); } iterPack = removePackages.values().iterator(); while (iterPack.hasNext()) { remove(iterPack.next()); } if (offline) { Runtime.getRuntime().addShutdownHook(new AddPackage(xml, "versions.xml")); Main.fenetre().erreur(Fenetre.UPDATE_TERMINE_RESTART); } else { File oldXML = new File("versions.xml"); oldXML.delete(); oldXML.createNewFile(); FileChannel out = new FileOutputStream(oldXML).getChannel(); FileChannel in = new FileInputStream(xml).getChannel(); in.transferTo(0, in.size(), out); in.close(); out.close(); xml.delete(); if (restart) { Main.fenetre().erreur(Fenetre.UPDATE_TERMINE_RESTART); } else { Main.updateVersion(); } } } catch (Exception e) { Main.fenetre().erreur(Fenetre.ERREUR_UPDATE, e); } } | 19,010 |
0 | public void testManageSources() throws Exception { this.getTestTool().manageSources(this.getTestSourcesDirectory()); this.getTestTool().manageSources(this.getTestTool().getModules().getModule("Module"), this.getTestSourcesDirectory()); final File implementationDirectory = this.getTestSourcesDirectory(); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); final File specificationDirectory = this.getTestSourcesDirectory(); this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), specificationDirectory); this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), specificationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("IllegalImplementationSource.java.txt"), new FileOutputStream(new File(implementationDirectory, "Implementation.java"))); IOUtils.copy(this.getClass().getResourceAsStream("IllegalSpecificationSource.java.txt"), new FileOutputStream(new File(specificationDirectory, "Specification.java"))); try { this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); Assert.fail("Expected IOException not thrown."); } catch (IOException e) { Assert.assertNotNull(e.getMessage()); System.out.println(e.toString()); } try { this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), specificationDirectory); Assert.fail("Expected IOException not thrown."); } catch (IOException e) { Assert.assertNotNull(e.getMessage()); System.out.println(e.toString()); } this.getTestTool().setProfile("DOES_NOT_EXIST"); this.getTestTool().manageSources(this.getTestSourcesDirectory()); this.getTestTool().manageSources(this.getTestTool().getModules().getModule("Module"), this.getTestSourcesDirectory()); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), this.getTestSourcesDirectory()); this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), this.getTestSourcesDirectory()); } | public HttpURLConnection execute(S3Bucket pBucket, S3Object pObject, S3OperationParameters pOpParams) throws S3Exception { S3OperationParameters opParams = pOpParams; if (opParams == null) opParams = new S3OperationParameters(); HttpURLConnection result = null; URL url = getURL(pBucket, pObject, opParams.getQueryParameters()); mLogger.log(Level.FINEST, "URL: " + url.toString()); opParams.addDateHeader(); switch(mStyle) { case Path: opParams.addHostHeader(BASE_DOMAIN); break; case Subdomain: if (pBucket == null) opParams.addHostHeader(BASE_DOMAIN); else opParams.addHostHeader(pBucket.getName() + "." + BASE_DOMAIN); break; case VirtualHost: if (pBucket == null) opParams.addHostHeader(BASE_DOMAIN); else opParams.addHostHeader(pBucket.getName()); break; } if (opParams.isSign()) { StringBuilder sb = new StringBuilder(); sb.append(opParams.getVerb().toString()); sb.append(NEWLINE); sb.append(posHeader(MD5, opParams.getRequestHeaders())); sb.append(posHeader(TYPE, opParams.getRequestHeaders())); if (opParams.getQueryParameters().has(EXPIRES)) { sb.append(opParams.getQueryParameters().get(EXPIRES).getValue()); sb.append(NEWLINE); } else { sb.append(posHeader(DATE, opParams.getRequestHeaders())); } sb.append(canonicalizeAmazonHeaders(opParams.getRequestHeaders())); try { sb.append("/"); if (pBucket != null) { sb.append(URLEncoder.encode(pBucket.getName(), URL_ENCODING)); sb.append("/"); if (pObject != null) { sb.append(URLEncoder.encode(pObject.getKey(), URL_ENCODING)); } } sb.append(opParams.getQueryParameters().getAmazonSubresources().toQueryString()); String signThis = sb.toString(); mLogger.log(Level.FINEST, "String being signed: " + signThis); String sig = encode(mCredential.getMSecretAccessKey(), signThis, false); sb = new StringBuilder(); sb.append("AWS "); sb.append(mCredential.getMAccessKeyID()); sb.append(":"); sb.append(sig); opParams.addAuthorizationHeader(sb.toString()); } catch (UnsupportedEncodingException e) { throw new S3Exception("URL encoding not supported: " + URL_ENCODING, e); } } try { killHostVerifier(); URLConnection urlConn = url.openConnection(); if (!(urlConn instanceof HttpURLConnection)) throw new S3Exception("URLConnection is not instance of HttpURLConnection!"); result = (HttpURLConnection) urlConn; result.setRequestMethod(opParams.getVerb().toString()); mLogger.log(Level.FINEST, "HTTP Operation: " + opParams.getVerb().toString()); if (opParams.getVerb() == HttpVerb.PUT) { result.setDoOutput(true); } result.setRequestProperty(TYPE, ""); for (AWSParameter param : opParams.getRequestHeaders()) { result.setRequestProperty(param.getName(), param.getValue()); mLogger.log(Level.FINEST, "Header " + param.getName() + ": " + param.getValue()); } } catch (IOException e) { throw new S3Exception("Problem opening connection to URL: " + url.toString(), e); } return result; } | 19,011 |
1 | private static void copyFile(File srcFile, File destFile, long chunkSize) throws IOException { FileInputStream is = null; FileOutputStream os = null; try { is = new FileInputStream(srcFile); FileChannel iChannel = is.getChannel(); os = new FileOutputStream(destFile, false); FileChannel oChannel = os.getChannel(); long doneBytes = 0L; long todoBytes = srcFile.length(); while (todoBytes != 0L) { long iterationBytes = Math.min(todoBytes, chunkSize); long transferredLength = oChannel.transferFrom(iChannel, doneBytes, iterationBytes); if (iterationBytes != transferredLength) { throw new IOException("Error during file transfer: expected " + iterationBytes + " bytes, only " + transferredLength + " bytes copied."); } doneBytes += transferredLength; todoBytes -= transferredLength; } } finally { if (is != null) { is.close(); } if (os != null) { os.close(); } } boolean successTimestampOp = destFile.setLastModified(srcFile.lastModified()); if (!successTimestampOp) { log.warn("Could not change timestamp for {}. Index synchronization may be slow.", destFile); } } | public static void copyFile(File src, File dest) throws IOException { log.debug("Copying file: '" + src + "' to '" + dest + "'"); FileChannel srcChannel = new FileInputStream(src).getChannel(); FileChannel dstChannel = new FileOutputStream(dest).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } | 19,012 |
0 | private File downloadPDB(String pdbId) { File tempFile = new File(path + "/" + pdbId + ".pdb.gz"); File pdbHome = new File(path); if (!pdbHome.canWrite()) { System.err.println("can not write to " + pdbHome); return null; } String ftp = String.format("ftp://ftp.ebi.ac.uk/pub/databases/msd/pdb_uncompressed/pdb%s.ent", pdbId.toLowerCase()); System.out.println("Fetching " + ftp); try { URL url = new URL(ftp); InputStream conn = url.openStream(); System.out.println("writing to " + tempFile); FileOutputStream outPut = new FileOutputStream(tempFile); GZIPOutputStream gzOutPut = new GZIPOutputStream(outPut); PrintWriter pw = new PrintWriter(gzOutPut); BufferedReader fileBuffer = new BufferedReader(new InputStreamReader(conn)); String line; while ((line = fileBuffer.readLine()) != null) { pw.println(line); } pw.flush(); pw.close(); outPut.close(); conn.close(); } catch (Exception e) { e.printStackTrace(); return null; } return tempFile; } | public void playSIDFromHVSC(String name) { player.reset(); player.setStatus("Loading song: " + name); URL url; try { if (name.startsWith("/")) { name = name.substring(1); } url = getResource(hvscBase + name); if (player.readSID(url.openConnection().getInputStream())) { player.playSID(); } } catch (IOException ioe) { System.out.println("Could not load: "); ioe.printStackTrace(); player.setStatus("Could not load SID: " + ioe.getMessage()); } } | 19,013 |
1 | protected static final void copyFile(String from, String to) throws SeleniumException { try { java.io.File fileFrom = new File(from); java.io.File fileTo = new File(to); FileReader in = new FileReader(fileFrom); FileWriter out = new FileWriter(fileTo); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); } catch (Exception e) { throw new SeleniumException("Failed to copy new file : " + from + " to : " + to, e); } } | public static void copy(String fromFileName, String toFileName) throws IOException { File fromFile = new File(fromFileName); File toFile = new File(toFileName); FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(fromFile); to = new FileOutputStream(toFile); byte[] buffer = new byte[4096]; int bytesRead; while ((bytesRead = from.read(buffer)) != -1) to.write(buffer, 0, bytesRead); } finally { from.close(); to.close(); } } | 19,014 |
1 | public static String SHA512(String text) throws NoSuchAlgorithmException, UnsupportedEncodingException { MessageDigest md; md = MessageDigest.getInstance("SHA-512"); byte[] sha1hash = new byte[40]; md.update(text.getBytes("UTF-8"), 0, text.length()); sha1hash = md.digest(); return convertToHex(sha1hash); } | private RemoteObject createRemoteObject(final VideoEntry videoEntry, final RemoteContainer container) throws RemoteException { MessageDigest instance; try { instance = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { throw new RemoteException(StatusCreator.newStatus("Error creating MD5", e)); } StringWriter sw = new StringWriter(); YouTubeMediaGroup mediaGroup = videoEntry.getMediaGroup(); if (mediaGroup != null) { if (mediaGroup.getDescription() != null) { sw.append(mediaGroup.getDescription().getPlainTextContent()); } List<MediaCategory> keywordsGroup = mediaGroup.getCategories(); StringBuilder sb = new StringBuilder(); if (keywordsGroup != null) { for (MediaCategory mediaCategory : keywordsGroup) { sb.append(mediaCategory.getContent()); } } } instance.update(sw.toString().getBytes()); RemoteObject remoteVideo = InfomngmntFactory.eINSTANCE.createRemoteObject(); remoteVideo.setHash(asHex(instance.digest())); remoteVideo.setId(SiteInspector.getId(videoEntry.getHtmlLink().getHref())); remoteVideo.setName(videoEntry.getTitle().getPlainText()); remoteVideo.setRepositoryTypeObjectId(KEY_VIDEO); remoteVideo.setWrappedObject(videoEntry); setInternalUrl(remoteVideo, container); return remoteVideo; } | 19,015 |
0 | private static String makeMD5(String str) { byte[] bytes = new byte[32]; try { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(str.getBytes("iso-8859-1"), 0, str.length()); bytes = md.digest(); } catch (Exception e) { return null; } return convertToHex(bytes); } | private void doPOST(HttpURLConnection connection, InputStream inputXML) throws MessageServiceException { try { OutputStream requestStream = new BufferedOutputStream(connection.getOutputStream()); IOUtils.copyAndClose(inputXML, requestStream); connection.connect(); } catch (IOException e) { throw new MessageServiceException(e.getMessage(), e); } } | 19,016 |
0 | private static FTPClient getFtpClient(String ftpHost, String ftpUsername, String ftpPassword) throws SocketException, IOException { FTPClient ftp = new FTPClient(); ftp.addProtocolCommandListener(new PrintCommandListener(new PrintWriter(System.out))); ftp.connect(ftpHost); int reply = ftp.getReplyCode(); if (!FTPReply.isPositiveCompletion(reply)) { ftp.disconnect(); return null; } if (!ftp.login(ftpUsername, ftpPassword)) { return null; } ftp.setFileType(FTP.BINARY_FILE_TYPE); ftp.enterLocalPassiveMode(); return ftp; } | public void run() { counter = 0; Log.debug("Fetching news"); Session session = botService.getSession(); if (session == null) { Log.warn("No current IRC session"); return; } final List<Channel> channels = session.getChannels(); if (channels.isEmpty()) { Log.warn("No channel for the current IRC session"); return; } if (StringUtils.isEmpty(feedURL)) { Log.warn("No feed provided"); return; } Log.debug("Creating feedListener"); FeedParserListener feedParserListener = new DefaultFeedParserListener() { public void onChannel(FeedParserState state, String title, String link, String description) throws FeedParserException { Log.debug("onChannel:" + title + "," + link + "," + description); } public void onItem(FeedParserState state, String title, String link, String description, String permalink) throws FeedParserException { if (counter >= MAX_FEEDS) { throw new FeedPollerCancelException("Maximum number of items reached"); } boolean canAnnounce = false; try { if (lastDigest == null) { MessageDigest md = MessageDigest.getInstance(HASH_ALGORITHM); md.update(title.getBytes()); lastDigest = md.digest(); canAnnounce = true; } else { MessageDigest md = MessageDigest.getInstance(HASH_ALGORITHM); md.update(title.getBytes()); byte[] currentDigest = md.digest(); if (!MessageDigest.isEqual(currentDigest, lastDigest)) { lastDigest = currentDigest; canAnnounce = true; } } if (canAnnounce) { String shortTitle = title; if (shortTitle.length() > TITLE_MAX_LEN) { shortTitle = shortTitle.substring(0, TITLE_MAX_LEN) + " ..."; } String shortLink = IOUtil.getTinyUrl(link); Log.debug("Link:" + shortLink); for (Channel channel : channels) { channel.say(String.format("%s, %s", shortTitle, shortLink)); } } } catch (Exception e) { throw new FeedParserException(e); } counter++; } public void onCreated(FeedParserState state, Date date) throws FeedParserException { } }; if (parser != null) { InputStream is = null; try { Log.debug("Reading feedURL"); is = new URL(feedURL).openStream(); parser.parse(feedParserListener, is, feedURL); Log.debug("Parsing done"); } catch (IOException ioe) { Log.error(ioe.getMessage(), ioe); } catch (FeedPollerCancelException fpce) { } catch (FeedParserException e) { for (Channel channel : channels) { channel.say(e.getMessage()); } } finally { IOUtil.closeQuietly(is); } } else { Log.warn("Wasn't able to create feed parser"); } } | 19,017 |
0 | private String fetchLocalPage(String page) throws IOException { final String fullUrl = HOST + page; LOG.debug("Fetching local page: " + fullUrl); URL url = new URL(fullUrl); URLConnection connection = url.openConnection(); StringBuilder sb = new StringBuilder(); BufferedReader input = null; try { input = new BufferedReader(new InputStreamReader(connection.getInputStream())); String line = null; while ((line = input.readLine()) != null) { sb.append(line).append("\n"); } } finally { if (input != null) try { input.close(); } catch (IOException e) { LOG.error("Could not close reader!", e); } } return sb.toString(); } | private void createProperty(String objectID, String value, String propertyID, Long userID) throws JspTagException { ClassProperty classProperty = new ClassProperty(new Long(propertyID)); String newValue = value; if (classProperty.getName().equals("Password")) { try { MessageDigest crypt = MessageDigest.getInstance("MD5"); crypt.update(value.getBytes()); byte digest[] = crypt.digest(); StringBuffer hexString = new StringBuffer(); for (int i = 0; i < digest.length; i++) { hexString.append(hexDigit(digest[i])); } newValue = hexString.toString(); crypt.reset(); } catch (NoSuchAlgorithmException e) { System.err.println("jspShop: Could not get instance of MD5 algorithm. Please fix this!" + e.getMessage()); e.printStackTrace(); throw new JspTagException("Error crypting password!: " + e.getMessage()); } } Properties properties = new Properties(new Long(objectID), userID); try { Property property = properties.create(new Long(propertyID), newValue); pageContext.setAttribute(getId(), property); } catch (CreateException e) { throw new JspTagException("Could not create PropertyValue, CreateException: " + e.getMessage()); } } | 19,018 |
1 | public static void main(String[] args) throws Exception { PatternLayout pl = new PatternLayout("%d{ISO8601} %-5p %c: %m\n"); ConsoleAppender ca = new ConsoleAppender(pl); Logger.getRoot().addAppender(ca); Logger.getRoot().setLevel(Level.INFO); Options options = new Options(); options.addOption("p", "put", false, "put a file in the DHT overlay"); options.addOption("g", "get", false, "get a file from the DHT"); options.addOption("r", "remove", false, "remove a file from the DHT"); options.addOption("u", "update", false, "updates the lease"); options.addOption("j", "join", false, "join the DHT overlay"); options.addOption("c", "config", true, "the configuration file"); options.addOption("k", "key", true, "the key to read a file from"); options.addOption("f", "file", true, "the file to read or write"); options.addOption("a", "app", true, "the application ID"); options.addOption("s", "secret", true, "the secret used to hide data"); options.addOption("t", "ttl", true, "how long in seconds data should persist"); CommandLineParser parser = new PosixParser(); CommandLine cmd = parser.parse(options, args); String configFile = null; String mode = null; String secretStr = null; int ttl = 9999; String keyStr = null; String file = null; int appId = 0; if (cmd.hasOption("j")) { mode = "join"; } if (cmd.hasOption("p")) { mode = "put"; } if (cmd.hasOption("g")) { mode = "get"; } if (cmd.hasOption("r")) { mode = "remove"; } if (cmd.hasOption("u")) { mode = "update"; } if (cmd.hasOption("c")) { configFile = cmd.getOptionValue("c"); } if (cmd.hasOption("k")) { keyStr = cmd.getOptionValue("k"); } if (cmd.hasOption("f")) { file = cmd.getOptionValue("f"); } if (cmd.hasOption("s")) { secretStr = cmd.getOptionValue("s"); } if (cmd.hasOption("t")) { ttl = Integer.parseInt(cmd.getOptionValue("t")); } if (cmd.hasOption("a")) { appId = Integer.parseInt(cmd.getOptionValue("a")); } if (mode == null) { System.err.println("ERROR: --put or --get or --remove or --join or --update is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } if (configFile == null) { System.err.println("ERROR: --config is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } Properties conf = new Properties(); conf.load(new FileInputStream(configFile)); DHT dht = new DHT(conf); if (mode.equals("join")) { dht.join(); } else if (mode.equals("put")) { if (file == null) { System.err.println("ERROR: --file is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } if (keyStr == null) { System.err.println("ERROR: --key is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } if (secretStr == null) { System.err.println("ERROR: --secret is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } logger.info("putting file " + file); FileInputStream in = new FileInputStream(file); byte[] tmp = new byte[1000000]; int num = in.read(tmp); byte[] value = new byte[num]; System.arraycopy(tmp, 0, value, 0, num); in.close(); if (dht.put((short) appId, keyStr.getBytes(), value, ttl, secretStr.getBytes()) < 0) { logger.info("There was an error while putting a key-value."); System.exit(0); } System.out.println("Ok!"); } else if (mode.equals("get")) { if (file == null) { System.err.println("ERROR: --file is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } if (keyStr == null) { System.err.println("ERROR: --key is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } logger.info("getting file " + file); ArrayList<byte[]> values = new ArrayList<byte[]>(); if (dht.get((short) appId, keyStr.getBytes(), Integer.MAX_VALUE, values) < 0) { logger.info("There was an error while getting a value."); System.exit(0); } if (values.size() == 0 || values == null) { System.out.println("No values returned."); System.exit(0); } FileOutputStream out = new FileOutputStream(file); System.out.println("Found " + values.size() + " values -- saving the first one only."); out.write(values.get(0)); out.close(); System.out.println("Ok!"); } else if (mode.equals("remove")) { if (keyStr == null) { System.err.println("ERROR: --key is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } if (secretStr == null) { System.err.println("ERROR: --secret is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } logger.info("removing <key,value> for key=" + keyStr); if (dht.remove((short) appId, keyStr.getBytes(), secretStr.getBytes()) < 0) { logger.info("There was an error while removing a key."); System.exit(0); } System.out.println("Ok!"); } else if (mode.equals("update")) { if (keyStr == null) { System.err.println("ERROR: --key is required"); HelpFormatter formatter = new HelpFormatter(); formatter.printHelp("DHT", options); System.exit(1); } logger.info("updating <key,value> for key=" + keyStr); if (dht.updateLease((short) appId, keyStr.getBytes(), ttl) < 0) { logger.info("There was an error while updating data lease."); System.exit(0); } System.out.println("Ok!"); } DHT.getInstance().stop(); } | @Override public void run() { try { IOUtils.copy(getSource(), processStdIn); System.err.println("Copy done."); close(); } catch (IOException e) { e.printStackTrace(); IOUtils.closeQuietly(ExternalDecoder.this); } } | 19,019 |
0 | @Override public void convert() throws Exception { URL url = new URL("http://qsardb.jrc.it/qmrf/download.jsp?filetype=xml&id=" + Integer.parseInt(this.id)); InputStream is = url.openStream(); try { QMRF qmrf = QmrfUtil.loadQmrf(is); Qmrf2Qdb.convert(getQdb(), qmrf); } finally { is.close(); } } | public static boolean predictDataSet(String completePath, String Type, String predictionOutputFileName, String slopeOneDataFolderName) { try { if (Type.equalsIgnoreCase("Qualifying")) { File inputFile = new File(completePath + fSep + "SmartGRAPE" + fSep + "CompleteQualifyingDataInByteFormat.txt"); FileChannel inC = new FileInputStream(inputFile).getChannel(); int filesize = (int) inC.size(); TShortObjectHashMap qualMap = new TShortObjectHashMap(17770, 1); ByteBuffer qualmappedfile = inC.map(FileChannel.MapMode.READ_ONLY, 0, filesize); while (qualmappedfile.hasRemaining()) { short movie = qualmappedfile.getShort(); int customer = qualmappedfile.getInt(); if (qualMap.containsKey(movie)) { TIntArrayList arr = (TIntArrayList) qualMap.get(movie); arr.add(customer); qualMap.put(movie, arr); } else { TIntArrayList arr = new TIntArrayList(); arr.add(customer); qualMap.put(movie, arr); } } System.out.println("Populated qualifying hashmap"); File outFile = new File(completePath + fSep + "SmartGRAPE" + fSep + predictionOutputFileName); FileChannel outC = new FileOutputStream(outFile).getChannel(); ByteBuffer buf; TShortObjectHashMap movieDiffStats; double finalPrediction; short[] movies = qualMap.keys(); Arrays.sort(movies); for (int i = 0; i < movies.length; i++) { short movieToProcess = movies[i]; movieDiffStats = loadMovieDiffStats(completePath, movieToProcess, slopeOneDataFolderName); System.out.println(movieDiffStats.size()); TIntArrayList customersToProcess = (TIntArrayList) qualMap.get(movieToProcess); for (int j = 0; j < customersToProcess.size(); j++) { int customerToProcess = customersToProcess.getQuick(j); finalPrediction = predictSlopeOneRating(customerToProcess, movieDiffStats); if (finalPrediction == finalPrediction) { if (finalPrediction < 1.0) finalPrediction = 1.0; else if (finalPrediction > 5.0) finalPrediction = 5.0; } else finalPrediction = GetAveragePrediction(movieToProcess); buf = ByteBuffer.allocate(10); buf.putShort(movieToProcess); buf.putInt(customerToProcess); buf.putFloat(new Double(finalPrediction).floatValue()); buf.flip(); outC.write(buf); } } outC.close(); return true; } else if (Type.equalsIgnoreCase("Probe")) { File inputFile = new File(completePath + fSep + "SmartGRAPE" + fSep + "CompleteProbeDataInByteFormat.txt"); FileChannel inC = new FileInputStream(inputFile).getChannel(); int filesize = (int) inC.size(); TShortObjectHashMap probeMap = new TShortObjectHashMap(17770, 1); ByteBuffer probemappedfile = inC.map(FileChannel.MapMode.READ_ONLY, 0, filesize); while (probemappedfile.hasRemaining()) { short movie = probemappedfile.getShort(); int customer = probemappedfile.getInt(); byte rating = probemappedfile.get(); if (probeMap.containsKey(movie)) { TIntByteHashMap actualRatings = (TIntByteHashMap) probeMap.get(movie); actualRatings.put(customer, rating); probeMap.put(movie, actualRatings); } else { TIntByteHashMap actualRatings = new TIntByteHashMap(); actualRatings.put(customer, rating); probeMap.put(movie, actualRatings); } } System.out.println("Populated probe hashmap"); File outFile = new File(completePath + fSep + "SmartGRAPE" + fSep + predictionOutputFileName); FileChannel outC = new FileOutputStream(outFile).getChannel(); ByteBuffer buf; double finalPrediction; TShortObjectHashMap movieDiffStats; short[] movies = probeMap.keys(); Arrays.sort(movies); for (int i = 0; i < movies.length; i++) { short movieToProcess = movies[i]; movieDiffStats = loadMovieDiffStats(completePath, movieToProcess, slopeOneDataFolderName); TIntByteHashMap custRatingsToProcess = (TIntByteHashMap) probeMap.get(movieToProcess); TIntArrayList customersToProcess = new TIntArrayList(custRatingsToProcess.keys()); for (int j = 0; j < customersToProcess.size(); j++) { int customerToProcess = customersToProcess.getQuick(j); byte rating = custRatingsToProcess.get(customerToProcess); finalPrediction = predictSlopeOneRating(customerToProcess, movieDiffStats); if (finalPrediction == finalPrediction) { if (finalPrediction < 1.0) finalPrediction = 1.0; else if (finalPrediction > 5.0) finalPrediction = 5.0; } else finalPrediction = GetAveragePrediction(movieToProcess); buf = ByteBuffer.allocate(11); buf.putShort(movieToProcess); buf.putInt(customerToProcess); buf.put(rating); buf.putFloat(new Double(finalPrediction).floatValue()); buf.flip(); outC.write(buf); } } outC.close(); return true; } else return false; } catch (Exception e) { e.printStackTrace(); return false; } } | 19,020 |
1 | public void show(HttpServletRequest request, HttpServletResponse response, String pantalla, Atributos modelos) { URL url = getRecurso(pantalla); try { IOUtils.copy(url.openStream(), response.getOutputStream()); } catch (IOException e) { throw new RuntimeException(e); } } | private void createWar() throws IOException, XMLStreamException { String appName = this.fileout.getName(); int i = appName.indexOf("."); if (i != -1) appName = appName.substring(0, i); ZipOutputStream zout = new ZipOutputStream(new FileOutputStream(this.fileout)); { ZipEntry entry = new ZipEntry("WEB-INF/web.xml"); zout.putNextEntry(entry); XMLOutputFactory factory = XMLOutputFactory.newInstance(); XMLStreamWriter w = factory.createXMLStreamWriter(zout, "ASCII"); w.writeStartDocument("ASCII", "1.0"); w.writeStartElement("web-app"); w.writeAttribute("xsi", XSI, "schemaLocation", "http://java.sun.com/xml/ns/javaee http://java.sun.com/xml /ns/javaee/web-app_2_5.xsd"); w.writeAttribute("version", "2.5"); w.writeAttribute("xmlns", J2EE); w.writeAttribute("xmlns:xsi", XSI); w.writeStartElement("description"); w.writeCharacters("Site maintenance for " + appName); w.writeEndElement(); w.writeStartElement("display-name"); w.writeCharacters(appName); w.writeEndElement(); w.writeStartElement("servlet"); w.writeStartElement("servlet-name"); w.writeCharacters("down"); w.writeEndElement(); w.writeStartElement("jsp-file"); w.writeCharacters("/WEB-INF/jsp/down.jsp"); w.writeEndElement(); w.writeEndElement(); w.writeStartElement("servlet-mapping"); w.writeStartElement("servlet-name"); w.writeCharacters("down"); w.writeEndElement(); w.writeStartElement("url-pattern"); w.writeCharacters("/*"); w.writeEndElement(); w.writeEndElement(); w.writeEndElement(); w.writeEndDocument(); w.flush(); zout.closeEntry(); } { ZipEntry entry = new ZipEntry("WEB-INF/jsp/down.jsp"); zout.putNextEntry(entry); PrintWriter w = new PrintWriter(zout); if (this.messageFile != null) { IOUtils.copyTo(new FileReader(this.messageFile), w); } else if (this.messageString != null) { w.print("<html><body>" + this.messageString + "</body></html>"); } else { w.print("<html><body><div style='text-align:center;font-size:500%;'>Oh No !<br/><b>" + appName + "</b><br/>is down for maintenance!</div></body></html>"); } w.flush(); zout.closeEntry(); } zout.finish(); zout.flush(); zout.close(); } | 19,021 |
1 | public static void writeEntry(File file, File input) throws PersistenceException { try { File temporaryFile = File.createTempFile("pmMDA_zargo", ARGOUML_EXT); temporaryFile.deleteOnExit(); ZipOutputStream output = new ZipOutputStream(new FileOutputStream(temporaryFile)); FileInputStream inputStream = new FileInputStream(input); ZipEntry entry = new ZipEntry(file.getName().substring(0, file.getName().indexOf(ARGOUML_EXT)) + XMI_EXT); output.putNextEntry(new ZipEntry(entry)); IOUtils.copy(inputStream, output); output.closeEntry(); inputStream.close(); entry = new ZipEntry(file.getName().substring(0, file.getName().indexOf(ARGOUML_EXT)) + ".argo"); output.putNextEntry(new ZipEntry(entry)); output.write(ArgoWriter.getArgoContent(file.getName().substring(0, file.getName().indexOf(ARGOUML_EXT)) + XMI_EXT).getBytes()); output.closeEntry(); output.close(); temporaryFile.renameTo(file); } catch (IOException ioe) { throw new PersistenceException(ioe); } } | public TempFileBinaryBody(InputStream is) throws IOException { TempPath tempPath = TempStorage.getInstance().getRootTempPath(); tempFile = tempPath.createTempFile("attachment", ".bin"); OutputStream out = tempFile.getOutputStream(); IOUtils.copy(is, out); out.close(); } | 19,022 |
0 | public static void copy(File src, File dest) throws IOException { log.info("Copying " + src.getAbsolutePath() + " to " + dest.getAbsolutePath()); if (!src.exists()) throw new IOException("File not found: " + src.getAbsolutePath()); if (!src.canRead()) throw new IOException("Source not readable: " + src.getAbsolutePath()); if (src.isDirectory()) { if (!dest.exists()) if (!dest.mkdirs()) throw new IOException("Could not create direcotry: " + dest.getAbsolutePath()); String children[] = src.list(); for (String child : children) { File src1 = new File(src, child); File dst1 = new File(dest, child); copy(src1, dst1); } } else { FileInputStream fin = null; FileOutputStream fout = null; byte[] buffer = new byte[4096]; int bytesRead; fin = new FileInputStream(src); fout = new FileOutputStream(dest); while ((bytesRead = fin.read(buffer)) >= 0) fout.write(buffer, 0, bytesRead); if (fin != null) { fin.close(); } if (fout != null) { fout.close(); } } } | private void loadRDFURL(URL url) throws RDFParseException, RepositoryException { URI urlContext = valueFactory.createURI(url.toString()); try { URLConnection urlConn = url.openConnection(); urlConn.setRequestProperty("Accept", "application/rdf+xml"); InputStream is = urlConn.getInputStream(); repoConn.add(is, url.toString(), RDFFormat.RDFXML, urlContext); is.close(); repoConn.commit(); } catch (IOException e) { e.printStackTrace(); } } | 19,023 |
0 | protected String getCitations(String ticket, String query) throws IOException { String urlQuery; try { urlQuery = "http://www.jstor.org/search/BasicResults?hp=" + MAX_CITATIONS + "&si=1&gw=jtx&jtxsi=1&jcpsi=1&artsi=1&Query=" + URLEncoder.encode(query, "UTF-8") + "&wc=on&citationAction=saveAll"; } catch (UnsupportedEncodingException e) { throw new RuntimeException(e); } URL url = new URL(urlQuery); URLConnection conn = url.openConnection(); conn.setRequestProperty("Cookie", ticket); return getCookie(COOKIE_CITATIONS, conn); } | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | 19,024 |
1 | @Override protected void setUp() throws Exception { this.logger = new ConsoleLogger(ConsoleLogger.LEVEL_WARN); File repoFolder = new File("target/repository"); removeRepository(repoFolder); InputStream repoConfigIn = getClass().getResourceAsStream(REPO_CONFIG_FILE); File tempRepoConfigFile = File.createTempFile("repository", "xml"); tempRepoConfigFile.deleteOnExit(); OutputStream tempRepoConfigOut = new FileOutputStream(tempRepoConfigFile); try { IOUtils.copy(repoConfigIn, tempRepoConfigOut); } finally { repoConfigIn.close(); tempRepoConfigOut.close(); } Repository repo = new TransientRepository(tempRepoConfigFile.getAbsolutePath(), "target/repository"); ServerAdapterFactory factory = new ServerAdapterFactory(); RemoteRepository remoteRepo = factory.getRemoteRepository(repo); reg = LocateRegistry.createRegistry(Registry.REGISTRY_PORT); reg.rebind(REMOTE_REPO_NAME, remoteRepo); session = repo.login(new SimpleCredentials(LOGIN, PWD.toCharArray()), WORKSPACE); InputStream nodeTypeDefIn = getClass().getResourceAsStream(MQ_JCR_XML_NODETYPES_FILE); JackrabbitInitializerHelper.setupRepository(session, new InputStreamReader(nodeTypeDefIn), ""); } | public static boolean encodeFileToFile(String infile, String outfile) { boolean success = false; java.io.InputStream in = null; java.io.OutputStream out = null; try { in = new Base64.InputStream(new java.io.BufferedInputStream(new java.io.FileInputStream(infile)), Base64.ENCODE); out = new java.io.BufferedOutputStream(new java.io.FileOutputStream(outfile)); byte[] buffer = new byte[65536]; int read = -1; while ((read = in.read(buffer)) >= 0) { out.write(buffer, 0, read); } success = true; } catch (java.io.IOException exc) { exc.printStackTrace(); } finally { try { in.close(); } catch (Exception exc) { } try { out.close(); } catch (Exception exc) { } } return success; } | 19,025 |
1 | public void generate(FileObject outputDirectory, FileObject generatedOutputDirectory, List<Library> libraryModels, String tapdocXml) throws FileSystemException { if (!generatedOutputDirectory.exists()) { generatedOutputDirectory.createFolder(); } if (outputDirectory.exists()) { outputDirectory.createFolder(); } ZipUtils.extractZip(new ClasspathResource(classResolver, "/com/erinors/tapestry/tapdoc/service/xdoc/resources.zip"), outputDirectory); for (Library library : libraryModels) { String libraryName = library.getName(); String libraryLocation = library.getLocation(); generatedOutputDirectory.resolveFile(fileNameGenerator.getLibraryDirectory(libraryLocation)).createFolder(); try { String result = XsltUtils.xsltTransform(tapdocXml, getClass().getResourceAsStream("Library.xsl"), "libraryName", libraryName); FileObject index = generatedOutputDirectory.resolveFile(fileNameGenerator.getLibraryDirectory(libraryLocation)).resolveFile("index.xml"); Writer out = new OutputStreamWriter(index.getContent().getOutputStream(), "UTF-8"); out.write(result); out.close(); } catch (Exception e) { throw new RuntimeException(e); } for (Component component : library.getComponents()) { String componentName = component.getName(); System.out.println("Generating " + libraryName + ":" + componentName + "..."); Map<String, String> parameters = new HashMap<String, String>(); parameters.put("libraryName", libraryName); parameters.put("componentName", componentName); String result = XsltUtils.xsltTransform(tapdocXml, getClass().getResourceAsStream("Component.xsl"), parameters); Writer out = null; try { FileObject index = generatedOutputDirectory.resolveFile(fileNameGenerator.getComponentIndexFile(libraryLocation, componentName, true)); out = new OutputStreamWriter(index.getContent().getOutputStream(), "UTF-8"); out.write(result); out.close(); Resource specificationLocation = component.getSpecificationLocation(); if (specificationLocation.getRelativeResource(componentName + "_tapdoc/resource").getResourceURL() != null) { File srcResourcesDirectory = new File(specificationLocation.getRelativeResource(componentName + "_tapdoc/resource").getResourceURL().toURI()); FileObject dstResourcesFileObject = outputDirectory.resolveFile(fileNameGenerator.getComponentDirectory(libraryLocation, componentName)).resolveFile("resource"); if (srcResourcesDirectory.exists() && srcResourcesDirectory.isDirectory()) { File[] files = srcResourcesDirectory.listFiles(); if (files != null) { for (File resource : files) { if (resource.isFile() && !resource.isHidden()) { FileObject resourceFileObject = dstResourcesFileObject.resolveFile(resource.getName()); resourceFileObject.createFile(); InputStream inResource = null; OutputStream outResource = null; try { inResource = new FileInputStream(resource); outResource = resourceFileObject.getContent().getOutputStream(); IOUtils.copy(inResource, outResource); } finally { IOUtils.closeQuietly(inResource); IOUtils.closeQuietly(outResource); } } } } } } } catch (Exception e) { throw new RuntimeException(e); } finally { IOUtils.closeQuietly(out); } } } { Writer out = null; try { String result = XsltUtils.xsltTransform(tapdocXml, getClass().getResourceAsStream("Overview.xsl")); FileObject index = generatedOutputDirectory.resolveFile("index.xml"); out = new OutputStreamWriter(index.getContent().getOutputStream(), "UTF-8"); out.write(result); out.close(); } catch (Exception e) { throw new RuntimeException(e); } finally { IOUtils.closeQuietly(out); } } } | static void cleanFile(File file) { final Counter cnt = new Counter(); final File out = new File(FileUtils.appendToFileName(file.getAbsolutePath(), ".cleaned")); final SAMFileReader reader = new SAMFileReader(file); final SAMRecordIterator it = reader.iterator(); final SAMFileWriter writer = new SAMFileWriterFactory().makeSAMOrBAMWriter(reader.getFileHeader(), true, out); if (!it.hasNext()) return; log.info("Cleaning file " + file + " to " + out.getName()); SAMRecord last = it.next(); writer.addAlignment(last); while (it.hasNext()) { final SAMRecord now = it.next(); final int start1 = last.getAlignmentStart(); final int start2 = now.getAlignmentStart(); final int end1 = last.getAlignmentEnd(); final int end2 = now.getAlignmentEnd(); if (start1 == start2 && end1 == end2) { log.debug("Discarding record " + now.toString()); cnt.count(); continue; } writer.addAlignment(now); last = now; } writer.close(); reader.close(); log.info(file + " done, discarded " + cnt.getCount() + " reads"); exe.shutdown(); } | 19,026 |
0 | public int addDecisionInstruction(int condition, String frameSlot, String linkName, int objectId, String attribute, int positive, int negative) throws FidoDatabaseException, ObjectNotFoundException, InstructionNotFoundException { try { Connection conn = null; Statement stmt = null; try { if ((condition == ConditionalOperatorTable.CONTAINS_LINK) || (condition == ConditionalOperatorTable.NOT_CONTAINS_LINK)) { ObjectTable ot = new ObjectTable(); if (ot.contains(objectId) == false) throw new ObjectNotFoundException(objectId); } conn = fido.util.FidoDataSource.getConnection(); conn.setAutoCommit(false); stmt = conn.createStatement(); if (contains(stmt, positive) == false) throw new InstructionNotFoundException(positive); if (contains(stmt, negative) == false) throw new InstructionNotFoundException(negative); String sql = "insert into Instructions (Type, Operator, FrameSlot, LinkName, ObjectId, AttributeName) " + "values (2, " + condition + ", '" + frameSlot + "', '" + linkName + "', " + objectId + ", '" + attribute + "')"; stmt.executeUpdate(sql); int id = getCurrentId(stmt); InstructionGroupTable groupTable = new InstructionGroupTable(); groupTable.deleteInstruction(stmt, id); if (positive != -1) groupTable.addInstructionAt(stmt, id, 1, positive); if (negative != -1) groupTable.addInstructionAt(stmt, id, 2, negative); conn.commit(); return id; } catch (SQLException e) { if (conn != null) conn.rollback(); throw e; } finally { if (stmt != null) stmt.close(); if (conn != null) conn.close(); } } catch (SQLException e) { throw new FidoDatabaseException(e); } } | public BufferedWriter createWriter(File outfile, String encoding) throws UnsupportedEncodingException, IOException { int k_blockSize = 1024; int byteCount; char[] buf = new char[k_blockSize]; ZipOutputStream zos = new ZipOutputStream(new FileOutputStream(outfile)); zos.setMethod(ZipOutputStream.DEFLATED); OutputStreamWriter osw = new OutputStreamWriter(zos, "ISO-8859-1"); BufferedWriter bw = new BufferedWriter(osw); ZipEntry zot; ZipInputStream zis = new ZipInputStream(new FileInputStream(infile)); InputStreamReader isr = new InputStreamReader(zis, "ISO-8859-1"); BufferedReader br = new BufferedReader(isr); ZipEntry zit; while ((zit = zis.getNextEntry()) != null) { if (zit.getName().equals("content.xml")) { continue; } zot = new ZipEntry(zit.getName()); zos.putNextEntry(zot); while ((byteCount = br.read(buf, 0, k_blockSize)) >= 0) bw.write(buf, 0, byteCount); bw.flush(); zos.closeEntry(); } zos.putNextEntry(new ZipEntry("content.xml")); bw.flush(); return new BufferedWriter(new OutputStreamWriter(zos, "UTF-8")); } | 19,027 |
0 | private Dataset(File f, Properties p, boolean ro) throws DatabaseException { folder = f; logger.debug("Opening dataset [" + ((ro) ? "readOnly" : "read/write") + " mode]"); readOnly = ro; logger = Logger.getLogger(Dataset.class); logger.debug("Opening environment: " + f); EnvironmentConfig envConfig = new EnvironmentConfig(); envConfig.setTransactional(false); envConfig.setAllowCreate(!readOnly); envConfig.setReadOnly(readOnly); env = new Environment(f, envConfig); File props = new File(folder, "dataset.properties"); if (!ro && p != null) { this.properties = p; try { FileOutputStream fos = new FileOutputStream(props); p.store(fos, null); fos.close(); } catch (IOException e) { logger.warn("Error saving dataset properties", e); } } else { if (props.exists()) { try { Properties pr = new Properties(); FileInputStream fis = new FileInputStream(props); pr.load(fis); fis.close(); this.properties = pr; } catch (IOException e) { logger.warn("Error reading dataset properties", e); } } } getPaths(); getNamespaces(); getTree(); pathDatabases = new HashMap(); frequencyDatabases = new HashMap(); lengthDatabases = new HashMap(); clustersDatabases = new HashMap(); pathMaps = new HashMap(); frequencyMaps = new HashMap(); lengthMaps = new HashMap(); clustersMaps = new HashMap(); } | public int instantiate(int objectId, String description) throws FidoDatabaseException, ObjectNotFoundException, ClassLinkTypeNotFoundException { try { Connection conn = null; Statement stmt = null; ResultSet rs = null; try { String sql = "insert into Objects (Description) " + "values ('" + description + "')"; conn = fido.util.FidoDataSource.getConnection(); conn.setAutoCommit(false); stmt = conn.createStatement(); if (contains(stmt, objectId) == false) throw new ObjectNotFoundException(objectId); stmt.executeUpdate(sql); int id; sql = "select currval('objects_objectid_seq')"; rs = stmt.executeQuery(sql); if (rs.next() == false) throw new SQLException("No rows returned from select currval() query"); else id = rs.getInt(1); ObjectLinkTable objectLinkList = new ObjectLinkTable(); objectLinkList.linkObjects(stmt, id, "instance", objectId); conn.commit(); return id; } catch (SQLException e) { if (conn != null) conn.rollback(); throw e; } finally { if (rs != null) rs.close(); if (stmt != null) stmt.close(); if (conn != null) conn.close(); } } catch (SQLException e) { throw new FidoDatabaseException(e); } } | 19,028 |
0 | private void createTree(DefaultMutableTreeNode top) throws MalformedURLException, ParserConfigurationException, SAXException, IOException { InputStream stream; URL url = new URL(SHIPS_URL + view.getBaseurl()); try { stream = url.openStream(); } catch (Exception e) { stream = getClass().getResourceAsStream("ships.xml"); } DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance(); DocumentBuilder parser = factory.newDocumentBuilder(); Document doc = parser.parse(stream); NodeList races = doc.getElementsByTagName("race"); for (int i = 0; i < races.getLength(); i++) { Element race = (Element) races.item(i); top.add(buildRaceTree(race)); } top.setUserObject("Ships"); view.getShipTree().repaint(); view.getShipTree().expandRow(0); } | public static void copy(File from_file, File to_file) throws IOException { if (!from_file.exists()) { throw new IOException("FileCopy: no such source file: " + from_file.getPath()); } if (!from_file.isFile()) { throw new IOException("FileCopy: can't copy directory: " + from_file.getPath()); } if (!from_file.canRead()) { throw new IOException("FileCopy: source file is unreadable: " + from_file.getPath()); } if (to_file.isDirectory()) { to_file = new File(to_file, from_file.getName()); } if (to_file.exists()) { if (!to_file.canWrite()) { throw new IOException("FileCopy: destination file is unwriteable: " + to_file.getPath()); } int choice = JOptionPane.showConfirmDialog(null, "Overwrite existing file " + to_file.getPath(), "File Exists", JOptionPane.YES_NO_OPTION, JOptionPane.QUESTION_MESSAGE); if (choice != JOptionPane.YES_OPTION) { throw new IOException("FileCopy: existing file was not overwritten."); } } else { String parent = to_file.getParent(); if (parent == null) { parent = Globals.getDefaultPath(); } File dir = new File(parent); if (!dir.exists()) { throw new IOException("FileCopy: destination directory doesn't exist: " + parent); } if (dir.isFile()) { throw new IOException("FileCopy: destination is not a directory: " + parent); } if (!dir.canWrite()) { throw new IOException("FileCopy: destination directory is unwriteable: " + parent); } } FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(from_file); to = new FileOutputStream(to_file); byte[] buffer = new byte[4096]; int bytes_read; while ((bytes_read = from.read(buffer)) != -1) { to.write(buffer, 0, bytes_read); } } finally { if (from != null) { try { from.close(); } catch (IOException e) { } } if (to != null) { try { to.close(); } catch (IOException e) { } } } } | 19,029 |
1 | private static void readAndRewrite(File inFile, File outFile) throws IOException { ImageInputStream iis = ImageIO.createImageInputStream(new BufferedInputStream(new FileInputStream(inFile))); DcmParser dcmParser = DcmParserFactory.getInstance().newDcmParser(iis); Dataset ds = DcmObjectFactory.getInstance().newDataset(); dcmParser.setDcmHandler(ds.getDcmHandler()); dcmParser.parseDcmFile(null, Tags.PixelData); PixelDataReader pdReader = pdFact.newReader(ds, iis, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); System.out.println("reading " + inFile + "..."); pdReader.readPixelData(false); ImageOutputStream out = ImageIO.createImageOutputStream(new BufferedOutputStream(new FileOutputStream(outFile))); DcmEncodeParam dcmEncParam = DcmEncodeParam.IVR_LE; ds.writeDataset(out, dcmEncParam); ds.writeHeader(out, dcmEncParam, Tags.PixelData, dcmParser.getReadVR(), dcmParser.getReadLength()); System.out.println("writing " + outFile + "..."); PixelDataWriter pdWriter = pdFact.newWriter(pdReader.getPixelDataArray(), false, ds, out, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); pdWriter.writePixelData(); out.flush(); out.close(); System.out.println("done!"); } | public static void copyFromOffset(long offset, File exe, File cab) throws IOException { DataInputStream in = new DataInputStream(new FileInputStream(exe)); FileOutputStream out = new FileOutputStream(cab); byte[] buffer = new byte[4096]; int bytes_read; in.skipBytes((int) offset); while ((bytes_read = in.read(buffer)) != -1) out.write(buffer, 0, bytes_read); in.close(); out.close(); in = null; out = null; } | 19,030 |
0 | @Override public InputStream getResourceStream(final String arg0) throws ResourceNotFoundException { try { final ServletContext context = CContext.getInstance().getContext(); final URL url = context.getResource(arg0); return url.openStream(); } catch (final Exception e) { return null; } } | public void createVendorSignature() { byte b; try { _vendorMessageDigest = MessageDigest.getInstance("MD5"); _vendorSig = Signature.getInstance("MD5/RSA/PKCS#1"); _vendorSig.initSign((PrivateKey) _vendorPrivateKey); _vendorMessageDigest.update(getBankString().getBytes()); _vendorMessageDigestBytes = _vendorMessageDigest.digest(); _vendorSig.update(_vendorMessageDigestBytes); _vendorSignatureBytes = _vendorSig.sign(); } catch (Exception e) { } ; } | 19,031 |
0 | private static void readAndRewrite(File inFile, File outFile) throws IOException { ImageInputStream iis = ImageIO.createImageInputStream(new BufferedInputStream(new FileInputStream(inFile))); DcmParser dcmParser = DcmParserFactory.getInstance().newDcmParser(iis); Dataset ds = DcmObjectFactory.getInstance().newDataset(); dcmParser.setDcmHandler(ds.getDcmHandler()); dcmParser.parseDcmFile(null, Tags.PixelData); PixelDataReader pdReader = pdFact.newReader(ds, iis, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); System.out.println("reading " + inFile + "..."); pdReader.readPixelData(false); ImageOutputStream out = ImageIO.createImageOutputStream(new BufferedOutputStream(new FileOutputStream(outFile))); DcmEncodeParam dcmEncParam = DcmEncodeParam.IVR_LE; ds.writeDataset(out, dcmEncParam); ds.writeHeader(out, dcmEncParam, Tags.PixelData, dcmParser.getReadVR(), dcmParser.getReadLength()); System.out.println("writing " + outFile + "..."); PixelDataWriter pdWriter = pdFact.newWriter(pdReader.getPixelDataArray(), false, ds, out, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); pdWriter.writePixelData(); out.flush(); out.close(); System.out.println("done!"); } | public void doGet(HttpServletRequest request_, HttpServletResponse response) throws IOException, ServletException { Writer out = null; DatabaseAdapter dbDyn = null; PreparedStatement st = null; try { RenderRequest renderRequest = null; RenderResponse renderResponse = null; ContentTypeTools.setContentType(response, ContentTypeTools.CONTENT_TYPE_UTF8); out = response.getWriter(); AuthSession auth_ = (AuthSession) renderRequest.getUserPrincipal(); if (auth_ == null) { throw new IllegalStateException("You have not enough right to execute this operation"); } PortletSession session = renderRequest.getPortletSession(); dbDyn = DatabaseAdapter.getInstance(); String index_page = PortletService.url("mill.price.index", renderRequest, renderResponse); Long id_shop = null; if (renderRequest.getParameter(ShopPortlet.NAME_ID_SHOP_PARAM) != null) { id_shop = PortletService.getLong(renderRequest, ShopPortlet.NAME_ID_SHOP_PARAM); } else { Long id_ = (Long) session.getAttribute(ShopPortlet.ID_SHOP_SESSION); if (id_ == null) { response.sendRedirect(index_page); return; } id_shop = id_; } session.removeAttribute(ShopPortlet.ID_SHOP_SESSION); session.setAttribute(ShopPortlet.ID_SHOP_SESSION, id_shop); if (auth_.isUserInRole("webmill.edit_price_list")) { Long id_item = PortletService.getLong(renderRequest, "id_item"); if (id_item == null) throw new IllegalArgumentException("id_item not initialized"); if (RequestTools.getString(renderRequest, "action").equals("update")) { dbDyn.getConnection().setAutoCommit(false); String sql_ = "delete from WM_PRICE_ITEM_DESCRIPTION a " + "where exists " + " ( select null from WM_PRICE_LIST b " + " where b.id_shop = ? and b.id_item = ? and " + " a.id_item=b.id_item ) "; try { st = dbDyn.prepareStatement(sql_); RsetTools.setLong(st, 1, id_shop); RsetTools.setLong(st, 2, id_item); st.executeUpdate(); } catch (Exception e0001) { dbDyn.rollback(); out.write("Error #1 - " + ExceptionTools.getStackTrace(e0001, 20, "<br>")); return; } finally { DatabaseManager.close(st); st = null; } sql_ = "insert into WM_PRICE_ITEM_DESCRIPTION " + "(ID_PRICE_ITEM_DESCRIPTION, ID_ITEM, TEXT)" + "(select seq_WM_PRICE_ITEM_DESCRIPTION.nextval, ID_ITEM, ? " + " from WM_PRICE_LIST b where b.ID_SHOP = ? and b.ID_ITEM = ? )"; try { int idx = 0; int offset = 0; int j = 0; byte[] b = StringTools.getBytesUTF(RequestTools.getString(renderRequest, "n")); st = dbDyn.prepareStatement(sql_); while ((idx = StringTools.getStartUTF(b, 2000, offset)) != -1) { st.setString(1, new String(b, offset, idx - offset, "utf-8")); RsetTools.setLong(st, 2, id_shop); RsetTools.setLong(st, 3, id_item); st.addBatch(); offset = idx; if (j > 10) break; j++; } int[] updateCounts = st.executeBatch(); if (log.isDebugEnabled()) log.debug("Number of updated records - " + updateCounts); dbDyn.commit(); } catch (Exception e0) { dbDyn.rollback(); out.write("Error #2 - " + ExceptionTools.getStackTrace(e0, 20, "<br>")); return; } finally { dbDyn.getConnection().setAutoCommit(true); if (st != null) { DatabaseManager.close(st); st = null; } } } if (RequestTools.getString(renderRequest, "action").equals("new_image") && renderRequest.getParameter("id_image") != null) { Long id_image = PortletService.getLong(renderRequest, "id_image"); dbDyn.getConnection().setAutoCommit(false); String sql_ = "delete from WM_IMAGE_PRICE_ITEMS a " + "where exists " + " ( select null from WM_PRICE_LIST b " + "where b.id_shop = ? and b.id_item = ? and " + "a.id_item=b.id_item ) "; try { st = dbDyn.prepareStatement(sql_); RsetTools.setLong(st, 1, id_shop); RsetTools.setLong(st, 2, id_item); st.executeUpdate(); } catch (Exception e0001) { dbDyn.rollback(); out.write("Error #3 - " + ExceptionTools.getStackTrace(e0001, 20, "<br>")); return; } finally { DatabaseManager.close(st); st = null; } sql_ = "insert into WM_IMAGE_PRICE_ITEMS " + "(id_IMAGE_PRICE_ITEMS, id_item, ID_IMAGE_DIR)" + "(select seq_WM_IMAGE_PRICE_ITEMS.nextval, id_item, ? " + " from WM_PRICE_LIST b where b.id_shop = ? and b.id_item = ? )"; try { st = dbDyn.prepareStatement(sql_); RsetTools.setLong(st, 1, id_image); RsetTools.setLong(st, 2, id_shop); RsetTools.setLong(st, 3, id_item); int updateCounts = st.executeUpdate(); if (log.isDebugEnabled()) log.debug("Number of updated records - " + updateCounts); dbDyn.commit(); } catch (Exception e0) { dbDyn.rollback(); log.error("Error insert image", e0); out.write("Error #4 - " + ExceptionTools.getStackTrace(e0, 20, "<br>")); return; } finally { dbDyn.getConnection().setAutoCommit(true); DatabaseManager.close(st); st = null; } } if (true) throw new Exception("Need refactoring"); } } catch (Exception e) { log.error(e); out.write(ExceptionTools.getStackTrace(e, 20, "<br>")); } finally { DatabaseManager.close(dbDyn, st); st = null; dbDyn = null; } } | 19,032 |
0 | private PropertiesLoader(String masterFileLocation, String extraFileLocation) throws IOException { List propertiesList = new ArrayList(); ClassLoader classLoader = this.getClass().getClassLoader(); try { InputStream is = classLoader.getResourceAsStream(masterFileLocation); Properties p = new Properties(); p.load(is); is.close(); propertiesList.add(p); } catch (IOException ioex) { IOException ex = new IOException("could not load ROME master plugins file [" + masterFileLocation + "], " + ioex.getMessage()); ex.setStackTrace(ioex.getStackTrace()); throw ex; } Enumeration urls = classLoader.getResources(extraFileLocation); while (urls.hasMoreElements()) { URL url = (URL) urls.nextElement(); Properties p = new Properties(); try { InputStream is = url.openStream(); p.load(is); is.close(); } catch (IOException ioex) { IOException ex = new IOException("could not load ROME extensions plugins file [" + url.toString() + "], " + ioex.getMessage()); ex.setStackTrace(ioex.getStackTrace()); throw ex; } propertiesList.add(p); } _properties = new Properties[propertiesList.size()]; propertiesList.toArray(_properties); } | private static void copyFile(File sourceFile, File destFile) throws IOException { if (!destFile.exists()) { destFile.createNewFile(); } FileChannel source = null; FileChannel destination = null; try { source = new FileInputStream(sourceFile).getChannel(); destination = new FileOutputStream(destFile).getChannel(); destination.transferFrom(source, 0, source.size()); } finally { if (source != null) { source.close(); } if (destination != null) { destination.close(); } } } | 19,033 |
0 | public static void main(String argv[]) { Matrix A, B, C, Z, O, I, R, S, X, SUB, M, T, SQ, DEF, SOL; int errorCount = 0; int warningCount = 0; double tmp, s; double[] columnwise = { 1., 2., 3., 4., 5., 6., 7., 8., 9., 10., 11., 12. }; double[] rowwise = { 1., 4., 7., 10., 2., 5., 8., 11., 3., 6., 9., 12. }; double[][] avals = { { 1., 4., 7., 10. }, { 2., 5., 8., 11. }, { 3., 6., 9., 12. } }; double[][] rankdef = avals; double[][] tvals = { { 1., 2., 3. }, { 4., 5., 6. }, { 7., 8., 9. }, { 10., 11., 12. } }; double[][] subavals = { { 5., 8., 11. }, { 6., 9., 12. } }; double[][] rvals = { { 1., 4., 7. }, { 2., 5., 8., 11. }, { 3., 6., 9., 12. } }; double[][] pvals = { { 1., 1., 1. }, { 1., 2., 3. }, { 1., 3., 6. } }; double[][] ivals = { { 1., 0., 0., 0. }, { 0., 1., 0., 0. }, { 0., 0., 1., 0. } }; double[][] evals = { { 0., 1., 0., 0. }, { 1., 0., 2.e-7, 0. }, { 0., -2.e-7, 0., 1. }, { 0., 0., 1., 0. } }; double[][] square = { { 166., 188., 210. }, { 188., 214., 240. }, { 210., 240., 270. } }; double[][] sqSolution = { { 13. }, { 15. } }; double[][] condmat = { { 1., 3. }, { 7., 9. } }; int rows = 3, cols = 4; int invalidld = 5; int raggedr = 0; int raggedc = 4; int validld = 3; int nonconformld = 4; int ib = 1, ie = 2, jb = 1, je = 3; int[] rowindexset = { 1, 2 }; int[] badrowindexset = { 1, 3 }; int[] columnindexset = { 1, 2, 3 }; int[] badcolumnindexset = { 1, 2, 4 }; double columnsummax = 33.; double rowsummax = 30.; double sumofdiagonals = 15; double sumofsquares = 650; print("\nTesting constructors and constructor-like methods...\n"); try { A = new Matrix(columnwise, invalidld); errorCount = try_failure(errorCount, "Catch invalid length in packed constructor... ", "exception not thrown for invalid input"); } catch (IllegalArgumentException e) { try_success("Catch invalid length in packed constructor... ", e.getMessage()); } try { A = new Matrix(rvals); tmp = A.get(raggedr, raggedc); } catch (IllegalArgumentException e) { try_success("Catch ragged input to default constructor... ", e.getMessage()); } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "Catch ragged input to constructor... ", "exception not thrown in construction...ArrayIndexOutOfBoundsException thrown later"); } try { A = Matrix.constructWithCopy(rvals); tmp = A.get(raggedr, raggedc); } catch (IllegalArgumentException e) { try_success("Catch ragged input to constructWithCopy... ", e.getMessage()); } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "Catch ragged input to constructWithCopy... ", "exception not thrown in construction...ArrayIndexOutOfBoundsException thrown later"); } A = new Matrix(columnwise, validld); B = new Matrix(avals); tmp = B.get(0, 0); avals[0][0] = 0.0; C = B.minus(A); avals[0][0] = tmp; B = Matrix.constructWithCopy(avals); tmp = B.get(0, 0); avals[0][0] = 0.0; if ((tmp - B.get(0, 0)) != 0.0) { errorCount = try_failure(errorCount, "constructWithCopy... ", "copy not effected... data visible outside"); } else { try_success("constructWithCopy... ", ""); } avals[0][0] = columnwise[0]; I = new Matrix(ivals); try { check(I, Matrix.identity(3, 4)); try_success("identity... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "identity... ", "identity Matrix not successfully created"); } print("\nTesting access methods...\n"); B = new Matrix(avals); if (B.getRowDimension() != rows) { errorCount = try_failure(errorCount, "getRowDimension... ", ""); } else { try_success("getRowDimension... ", ""); } if (B.getColumnDimension() != cols) { errorCount = try_failure(errorCount, "getColumnDimension... ", ""); } else { try_success("getColumnDimension... ", ""); } B = new Matrix(avals); double[][] barray = B.getArray(); if (barray != avals) { errorCount = try_failure(errorCount, "getArray... ", ""); } else { try_success("getArray... ", ""); } barray = B.getArrayCopy(); if (barray == avals) { errorCount = try_failure(errorCount, "getArrayCopy... ", "data not (deep) copied"); } try { check(barray, avals); try_success("getArrayCopy... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getArrayCopy... ", "data not successfully (deep) copied"); } double[] bpacked = B.getColumnPackedCopy(); try { check(bpacked, columnwise); try_success("getColumnPackedCopy... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getColumnPackedCopy... ", "data not successfully (deep) copied by columns"); } bpacked = B.getRowPackedCopy(); try { check(bpacked, rowwise); try_success("getRowPackedCopy... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getRowPackedCopy... ", "data not successfully (deep) copied by rows"); } try { tmp = B.get(B.getRowDimension(), B.getColumnDimension() - 1); errorCount = try_failure(errorCount, "get(int,int)... ", "OutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { tmp = B.get(B.getRowDimension() - 1, B.getColumnDimension()); errorCount = try_failure(errorCount, "get(int,int)... ", "OutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("get(int,int)... OutofBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "get(int,int)... ", "OutOfBoundsException expected but not thrown"); } try { if (B.get(B.getRowDimension() - 1, B.getColumnDimension() - 1) != avals[B.getRowDimension() - 1][B.getColumnDimension() - 1]) { errorCount = try_failure(errorCount, "get(int,int)... ", "Matrix entry (i,j) not successfully retreived"); } else { try_success("get(int,int)... ", ""); } } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "get(int,int)... ", "Unexpected ArrayIndexOutOfBoundsException"); } SUB = new Matrix(subavals); try { M = B.getMatrix(ib, ie + B.getRowDimension() + 1, jb, je); errorCount = try_failure(errorCount, "getMatrix(int,int,int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { M = B.getMatrix(ib, ie, jb, je + B.getColumnDimension() + 1); errorCount = try_failure(errorCount, "getMatrix(int,int,int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("getMatrix(int,int,int,int)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "getMatrix(int,int,int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { M = B.getMatrix(ib, ie, jb, je); try { check(SUB, M); try_success("getMatrix(int,int,int,int)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getMatrix(int,int,int,int)... ", "submatrix not successfully retreived"); } } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "getMatrix(int,int,int,int)... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { M = B.getMatrix(ib, ie, badcolumnindexset); errorCount = try_failure(errorCount, "getMatrix(int,int,int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { M = B.getMatrix(ib, ie + B.getRowDimension() + 1, columnindexset); errorCount = try_failure(errorCount, "getMatrix(int,int,int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("getMatrix(int,int,int[])... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "getMatrix(int,int,int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { M = B.getMatrix(ib, ie, columnindexset); try { check(SUB, M); try_success("getMatrix(int,int,int[])... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getMatrix(int,int,int[])... ", "submatrix not successfully retreived"); } } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "getMatrix(int,int,int[])... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { M = B.getMatrix(badrowindexset, jb, je); errorCount = try_failure(errorCount, "getMatrix(int[],int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { M = B.getMatrix(rowindexset, jb, je + B.getColumnDimension() + 1); errorCount = try_failure(errorCount, "getMatrix(int[],int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("getMatrix(int[],int,int)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "getMatrix(int[],int,int)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { M = B.getMatrix(rowindexset, jb, je); try { check(SUB, M); try_success("getMatrix(int[],int,int)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getMatrix(int[],int,int)... ", "submatrix not successfully retreived"); } } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "getMatrix(int[],int,int)... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { M = B.getMatrix(badrowindexset, columnindexset); errorCount = try_failure(errorCount, "getMatrix(int[],int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { M = B.getMatrix(rowindexset, badcolumnindexset); errorCount = try_failure(errorCount, "getMatrix(int[],int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("getMatrix(int[],int[])... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "getMatrix(int[],int[])... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { M = B.getMatrix(rowindexset, columnindexset); try { check(SUB, M); try_success("getMatrix(int[],int[])... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "getMatrix(int[],int[])... ", "submatrix not successfully retreived"); } } catch (java.lang.ArrayIndexOutOfBoundsException e) { errorCount = try_failure(errorCount, "getMatrix(int[],int[])... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { B.set(B.getRowDimension(), B.getColumnDimension() - 1, 0.); errorCount = try_failure(errorCount, "set(int,int,double)... ", "OutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { B.set(B.getRowDimension() - 1, B.getColumnDimension(), 0.); errorCount = try_failure(errorCount, "set(int,int,double)... ", "OutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("set(int,int,double)... OutofBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "set(int,int,double)... ", "OutOfBoundsException expected but not thrown"); } try { B.set(ib, jb, 0.); tmp = B.get(ib, jb); try { check(tmp, 0.); try_success("set(int,int,double)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "set(int,int,double)... ", "Matrix element not successfully set"); } } catch (java.lang.ArrayIndexOutOfBoundsException e1) { errorCount = try_failure(errorCount, "set(int,int,double)... ", "Unexpected ArrayIndexOutOfBoundsException"); } M = new Matrix(2, 3, 0.); try { B.setMatrix(ib, ie + B.getRowDimension() + 1, jb, je, M); errorCount = try_failure(errorCount, "setMatrix(int,int,int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { B.setMatrix(ib, ie, jb, je + B.getColumnDimension() + 1, M); errorCount = try_failure(errorCount, "setMatrix(int,int,int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("setMatrix(int,int,int,int,Matrix)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "setMatrix(int,int,int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { B.setMatrix(ib, ie, jb, je, M); try { check(M.minus(B.getMatrix(ib, ie, jb, je)), M); try_success("setMatrix(int,int,int,int,Matrix)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "setMatrix(int,int,int,int,Matrix)... ", "submatrix not successfully set"); } B.setMatrix(ib, ie, jb, je, SUB); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { errorCount = try_failure(errorCount, "setMatrix(int,int,int,int,Matrix)... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { B.setMatrix(ib, ie + B.getRowDimension() + 1, columnindexset, M); errorCount = try_failure(errorCount, "setMatrix(int,int,int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { B.setMatrix(ib, ie, badcolumnindexset, M); errorCount = try_failure(errorCount, "setMatrix(int,int,int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("setMatrix(int,int,int[],Matrix)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "setMatrix(int,int,int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { B.setMatrix(ib, ie, columnindexset, M); try { check(M.minus(B.getMatrix(ib, ie, columnindexset)), M); try_success("setMatrix(int,int,int[],Matrix)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "setMatrix(int,int,int[],Matrix)... ", "submatrix not successfully set"); } B.setMatrix(ib, ie, jb, je, SUB); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { errorCount = try_failure(errorCount, "setMatrix(int,int,int[],Matrix)... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { B.setMatrix(rowindexset, jb, je + B.getColumnDimension() + 1, M); errorCount = try_failure(errorCount, "setMatrix(int[],int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { B.setMatrix(badrowindexset, jb, je, M); errorCount = try_failure(errorCount, "setMatrix(int[],int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("setMatrix(int[],int,int,Matrix)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "setMatrix(int[],int,int,Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { B.setMatrix(rowindexset, jb, je, M); try { check(M.minus(B.getMatrix(rowindexset, jb, je)), M); try_success("setMatrix(int[],int,int,Matrix)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "setMatrix(int[],int,int,Matrix)... ", "submatrix not successfully set"); } B.setMatrix(ib, ie, jb, je, SUB); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { errorCount = try_failure(errorCount, "setMatrix(int[],int,int,Matrix)... ", "Unexpected ArrayIndexOutOfBoundsException"); } try { B.setMatrix(rowindexset, badcolumnindexset, M); errorCount = try_failure(errorCount, "setMatrix(int[],int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e) { try { B.setMatrix(badrowindexset, columnindexset, M); errorCount = try_failure(errorCount, "setMatrix(int[],int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } catch (java.lang.ArrayIndexOutOfBoundsException e1) { try_success("setMatrix(int[],int[],Matrix)... ArrayIndexOutOfBoundsException... ", ""); } } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "setMatrix(int[],int[],Matrix)... ", "ArrayIndexOutOfBoundsException expected but not thrown"); } try { B.setMatrix(rowindexset, columnindexset, M); try { check(M.minus(B.getMatrix(rowindexset, columnindexset)), M); try_success("setMatrix(int[],int[],Matrix)... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "setMatrix(int[],int[],Matrix)... ", "submatrix not successfully set"); } } catch (java.lang.ArrayIndexOutOfBoundsException e1) { errorCount = try_failure(errorCount, "setMatrix(int[],int[],Matrix)... ", "Unexpected ArrayIndexOutOfBoundsException"); } print("\nTesting array-like methods...\n"); S = new Matrix(columnwise, nonconformld); R = Matrix.random(A.getRowDimension(), A.getColumnDimension()); A = R; try { S = A.minus(S); errorCount = try_failure(errorCount, "minus conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("minus conformance check... ", ""); } if (A.minus(R).norm1() != 0.) { errorCount = try_failure(errorCount, "minus... ", "(difference of identical Matrices is nonzero,\nSubsequent use of minus should be suspect)"); } else { try_success("minus... ", ""); } A = R.copy(); A.minusEquals(R); Z = new Matrix(A.getRowDimension(), A.getColumnDimension()); try { A.minusEquals(S); errorCount = try_failure(errorCount, "minusEquals conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("minusEquals conformance check... ", ""); } if (A.minus(Z).norm1() != 0.) { errorCount = try_failure(errorCount, "minusEquals... ", "(difference of identical Matrices is nonzero,\nSubsequent use of minus should be suspect)"); } else { try_success("minusEquals... ", ""); } A = R.copy(); B = Matrix.random(A.getRowDimension(), A.getColumnDimension()); C = A.minus(B); try { S = A.plus(S); errorCount = try_failure(errorCount, "plus conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("plus conformance check... ", ""); } try { check(C.plus(B), A); try_success("plus... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "plus... ", "(C = A - B, but C + B != A)"); } C = A.minus(B); C.plusEquals(B); try { A.plusEquals(S); errorCount = try_failure(errorCount, "plusEquals conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("plusEquals conformance check... ", ""); } try { check(C, A); try_success("plusEquals... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "plusEquals... ", "(C = A - B, but C = C + B != A)"); } A = R.uminus(); try { check(A.plus(R), Z); try_success("uminus... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "uminus... ", "(-A + A != zeros)"); } A = R.copy(); O = new Matrix(A.getRowDimension(), A.getColumnDimension(), 1.0); C = A.arrayLeftDivide(R); try { S = A.arrayLeftDivide(S); errorCount = try_failure(errorCount, "arrayLeftDivide conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayLeftDivide conformance check... ", ""); } try { check(C, O); try_success("arrayLeftDivide... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayLeftDivide... ", "(M.\\M != ones)"); } try { A.arrayLeftDivideEquals(S); errorCount = try_failure(errorCount, "arrayLeftDivideEquals conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayLeftDivideEquals conformance check... ", ""); } A.arrayLeftDivideEquals(R); try { check(A, O); try_success("arrayLeftDivideEquals... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayLeftDivideEquals... ", "(M.\\M != ones)"); } A = R.copy(); try { A.arrayRightDivide(S); errorCount = try_failure(errorCount, "arrayRightDivide conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayRightDivide conformance check... ", ""); } C = A.arrayRightDivide(R); try { check(C, O); try_success("arrayRightDivide... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayRightDivide... ", "(M./M != ones)"); } try { A.arrayRightDivideEquals(S); errorCount = try_failure(errorCount, "arrayRightDivideEquals conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayRightDivideEquals conformance check... ", ""); } A.arrayRightDivideEquals(R); try { check(A, O); try_success("arrayRightDivideEquals... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayRightDivideEquals... ", "(M./M != ones)"); } A = R.copy(); B = Matrix.random(A.getRowDimension(), A.getColumnDimension()); try { S = A.arrayTimes(S); errorCount = try_failure(errorCount, "arrayTimes conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayTimes conformance check... ", ""); } C = A.arrayTimes(B); try { check(C.arrayRightDivideEquals(B), A); try_success("arrayTimes... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayTimes... ", "(A = R, C = A.*B, but C./B != A)"); } try { A.arrayTimesEquals(S); errorCount = try_failure(errorCount, "arrayTimesEquals conformance check... ", "nonconformance not raised"); } catch (IllegalArgumentException e) { try_success("arrayTimesEquals conformance check... ", ""); } A.arrayTimesEquals(B); try { check(A.arrayRightDivideEquals(B), R); try_success("arrayTimesEquals... ", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "arrayTimesEquals... ", "(A = R, A = A.*B, but A./B != R)"); } print("\nTesting I/O methods...\n"); try { DecimalFormat fmt = new DecimalFormat("0.0000E00"); fmt.setDecimalFormatSymbols(new DecimalFormatSymbols(Locale.US)); PrintWriter FILE = new PrintWriter(new FileOutputStream("JamaTestMatrix.out")); A.print(FILE, fmt, 10); FILE.close(); R = Matrix.read(new BufferedReader(new FileReader("JamaTestMatrix.out"))); if (A.minus(R).norm1() < .001) { try_success("print()/read()...", ""); } else { errorCount = try_failure(errorCount, "print()/read()...", "Matrix read from file does not match Matrix printed to file"); } } catch (java.io.IOException ioe) { warningCount = try_warning(warningCount, "print()/read()...", "unexpected I/O error, unable to run print/read test; check write permission in current directory and retry"); } catch (Exception e) { try { e.printStackTrace(System.out); warningCount = try_warning(warningCount, "print()/read()...", "Formatting error... will try JDK1.1 reformulation..."); DecimalFormat fmt = new DecimalFormat("0.0000"); PrintWriter FILE = new PrintWriter(new FileOutputStream("JamaTestMatrix.out")); A.print(FILE, fmt, 10); FILE.close(); R = Matrix.read(new BufferedReader(new FileReader("JamaTestMatrix.out"))); if (A.minus(R).norm1() < .001) { try_success("print()/read()...", ""); } else { errorCount = try_failure(errorCount, "print()/read() (2nd attempt) ...", "Matrix read from file does not match Matrix printed to file"); } } catch (java.io.IOException ioe) { warningCount = try_warning(warningCount, "print()/read()...", "unexpected I/O error, unable to run print/read test; check write permission in current directory and retry"); } } R = Matrix.random(A.getRowDimension(), A.getColumnDimension()); String tmpname = "TMPMATRIX.serial"; try { ObjectOutputStream out = new ObjectOutputStream(new FileOutputStream(tmpname)); out.writeObject(R); ObjectInputStream sin = new ObjectInputStream(new FileInputStream(tmpname)); A = (Matrix) sin.readObject(); try { check(A, R); try_success("writeObject(Matrix)/readObject(Matrix)...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "writeObject(Matrix)/readObject(Matrix)...", "Matrix not serialized correctly"); } } catch (java.io.IOException ioe) { warningCount = try_warning(warningCount, "writeObject()/readObject()...", "unexpected I/O error, unable to run serialization test; check write permission in current directory and retry"); } catch (Exception e) { errorCount = try_failure(errorCount, "writeObject(Matrix)/readObject(Matrix)...", "unexpected error in serialization test"); } print("\nTesting linear algebra methods...\n"); A = new Matrix(columnwise, 3); T = new Matrix(tvals); T = A.transpose(); try { check(A.transpose(), T); try_success("transpose...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "transpose()...", "transpose unsuccessful"); } A.transpose(); try { check(A.norm1(), columnsummax); try_success("norm1...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "norm1()...", "incorrect norm calculation"); } try { check(A.normInf(), rowsummax); try_success("normInf()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "normInf()...", "incorrect norm calculation"); } try { check(A.normF(), Math.sqrt(sumofsquares)); try_success("normF...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "normF()...", "incorrect norm calculation"); } try { check(A.trace(), sumofdiagonals); try_success("trace()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "trace()...", "incorrect trace calculation"); } try { check(A.getMatrix(0, A.getRowDimension() - 1, 0, A.getRowDimension() - 1).det(), 0.); try_success("det()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "det()...", "incorrect determinant calculation"); } SQ = new Matrix(square); try { check(A.times(A.transpose()), SQ); try_success("times(Matrix)...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "times(Matrix)...", "incorrect Matrix-Matrix product calculation"); } try { check(A.times(0.), Z); try_success("times(double)...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "times(double)...", "incorrect Matrix-scalar product calculation"); } A = new Matrix(columnwise, 4); QRDecomposition QR = A.qr(); R = QR.getR(); try { check(A, QR.getQ().times(R)); try_success("QRDecomposition...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "QRDecomposition...", "incorrect QR decomposition calculation"); } SingularValueDecomposition SVD = A.svd(); try { check(A, SVD.getU().times(SVD.getS().times(SVD.getV().transpose()))); try_success("SingularValueDecomposition...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "SingularValueDecomposition...", "incorrect singular value decomposition calculation"); } DEF = new Matrix(rankdef); try { check(DEF.rank(), Math.min(DEF.getRowDimension(), DEF.getColumnDimension()) - 1); try_success("rank()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "rank()...", "incorrect rank calculation"); } B = new Matrix(condmat); SVD = B.svd(); double[] singularvalues = SVD.getSingularValues(); try { check(B.cond(), singularvalues[0] / singularvalues[Math.min(B.getRowDimension(), B.getColumnDimension()) - 1]); try_success("cond()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "cond()...", "incorrect condition number calculation"); } int n = A.getColumnDimension(); A = A.getMatrix(0, n - 1, 0, n - 1); A.set(0, 0, 0.); LUDecomposition LU = A.lu(); try { check(A.getMatrix(LU.getPivot(), 0, n - 1), LU.getL().times(LU.getU())); try_success("LUDecomposition...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "LUDecomposition...", "incorrect LU decomposition calculation"); } X = A.inverse(); try { check(A.times(X), Matrix.identity(3, 3)); try_success("inverse()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "inverse()...", "incorrect inverse calculation"); } O = new Matrix(SUB.getRowDimension(), 1, 1.0); SOL = new Matrix(sqSolution); SQ = SUB.getMatrix(0, SUB.getRowDimension() - 1, 0, SUB.getRowDimension() - 1); try { check(SQ.solve(SOL), O); try_success("solve()...", ""); } catch (java.lang.IllegalArgumentException e1) { errorCount = try_failure(errorCount, "solve()...", e1.getMessage()); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "solve()...", e.getMessage()); } A = new Matrix(pvals); CholeskyDecomposition Chol = A.chol(); Matrix L = Chol.getL(); try { check(A, L.times(L.transpose())); try_success("CholeskyDecomposition...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "CholeskyDecomposition...", "incorrect Cholesky decomposition calculation"); } X = Chol.solve(Matrix.identity(3, 3)); try { check(A.times(X), Matrix.identity(3, 3)); try_success("CholeskyDecomposition solve()...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "CholeskyDecomposition solve()...", "incorrect Choleskydecomposition solve calculation"); } EigenvalueDecomposition Eig = A.eig(); Matrix D = Eig.getD(); Matrix V = Eig.getV(); try { check(A.times(V), V.times(D)); try_success("EigenvalueDecomposition (symmetric)...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "EigenvalueDecomposition (symmetric)...", "incorrect symmetric Eigenvalue decomposition calculation"); } A = new Matrix(evals); Eig = A.eig(); D = Eig.getD(); V = Eig.getV(); try { check(A.times(V), V.times(D)); try_success("EigenvalueDecomposition (nonsymmetric)...", ""); } catch (java.lang.RuntimeException e) { errorCount = try_failure(errorCount, "EigenvalueDecomposition (nonsymmetric)...", "incorrect nonsymmetric Eigenvalue decomposition calculation"); } print("\nTestMatrix completed.\n"); print("Total errors reported: " + Integer.toString(errorCount) + "\n"); print("Total warnings reported: " + Integer.toString(warningCount) + "\n"); } | @SuppressWarnings("unchecked") private List<String> getWordList() { IConfiguration config = Configurator.getDefaultConfigurator().getConfig(CONFIG_ID); List<String> wList = (List<String>) config.getObject("word_list"); if (wList == null) { wList = new ArrayList<String>(); InputStream resrc = null; try { resrc = new URL(list_url).openStream(); } catch (Exception e) { e.printStackTrace(); } if (resrc != null) { BufferedReader br = new BufferedReader(new InputStreamReader(resrc)); String line; try { while ((line = br.readLine()) != null) { line = line.trim(); if (line.length() != 0) { wList.add(line); } } } catch (IOException e) { e.printStackTrace(); } finally { if (br != null) { try { br.close(); } catch (IOException e) { } } } } } return wList; } | 19,034 |
1 | public static boolean decodeFileToFile(String infile, String outfile) { boolean success = false; java.io.InputStream in = null; java.io.OutputStream out = null; try { in = new Base64.InputStream(new java.io.BufferedInputStream(new java.io.FileInputStream(infile)), Base64.DECODE); out = new java.io.BufferedOutputStream(new java.io.FileOutputStream(outfile)); byte[] buffer = new byte[65536]; int read = -1; while ((read = in.read(buffer)) >= 0) { out.write(buffer, 0, read); } success = true; } catch (java.io.IOException exc) { exc.printStackTrace(); } finally { try { in.close(); } catch (Exception exc) { } try { out.close(); } catch (Exception exc) { } } return success; } | private static void readAndRewrite(File inFile, File outFile) throws IOException { ImageInputStream iis = ImageIO.createImageInputStream(new BufferedInputStream(new FileInputStream(inFile))); DcmParser dcmParser = DcmParserFactory.getInstance().newDcmParser(iis); Dataset ds = DcmObjectFactory.getInstance().newDataset(); dcmParser.setDcmHandler(ds.getDcmHandler()); dcmParser.parseDcmFile(null, Tags.PixelData); PixelDataReader pdReader = pdFact.newReader(ds, iis, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); System.out.println("reading " + inFile + "..."); pdReader.readPixelData(false); ImageOutputStream out = ImageIO.createImageOutputStream(new BufferedOutputStream(new FileOutputStream(outFile))); DcmEncodeParam dcmEncParam = DcmEncodeParam.IVR_LE; ds.writeDataset(out, dcmEncParam); ds.writeHeader(out, dcmEncParam, Tags.PixelData, dcmParser.getReadVR(), dcmParser.getReadLength()); System.out.println("writing " + outFile + "..."); PixelDataWriter pdWriter = pdFact.newWriter(pdReader.getPixelDataArray(), false, ds, out, dcmParser.getDcmDecodeParam().byteOrder, dcmParser.getReadVR()); pdWriter.writePixelData(); out.flush(); out.close(); System.out.println("done!"); } | 19,035 |
1 | @Override public void execute() throws ProcessorExecutionException { try { if (getSource().getPaths() == null || getSource().getPaths().size() == 0 || getDestination().getPaths() == null || getDestination().getPaths().size() == 0) { throw new ProcessorExecutionException("No input and/or output paths specified."); } String temp_dir_prefix = getDestination().getPath().getParent().toString() + "/bcc_" + getDestination().getPath().getName() + "_"; SequenceTempDirMgr dirMgr = new SequenceTempDirMgr(temp_dir_prefix, context); dirMgr.setSeqNum(0); Path tmpDir; System.out.println("++++++>" + dirMgr.getSeqNum() + ": Transform input to AdjSetVertex"); Transformer transformer = new OutAdjVertex2AdjSetVertexTransformer(); transformer.setConf(context); transformer.setSrcPath(getSource().getPath()); tmpDir = dirMgr.getTempDir(); transformer.setDestPath(tmpDir); transformer.setMapperNum(getMapperNum()); transformer.setReducerNum(getReducerNum()); transformer.execute(); System.out.println("++++++>" + dirMgr.getSeqNum() + ": Transform input to LabeledAdjSetVertex"); Vertex2LabeledTransformer l_transformer = new Vertex2LabeledTransformer(); l_transformer.setConf(context); l_transformer.setSrcPath(tmpDir); tmpDir = dirMgr.getTempDir(); l_transformer.setDestPath(tmpDir); l_transformer.setMapperNum(getMapperNum()); l_transformer.setReducerNum(getReducerNum()); l_transformer.setOutputValueClass(LabeledAdjSetVertex.class); l_transformer.execute(); Graph src; Graph dest; Path path_to_remember = tmpDir; System.out.println("++++++>" + dirMgr.getSeqNum() + ": SpanningTreeRootChoose"); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); dest = new Graph(Graph.defaultGraph()); tmpDir = dirMgr.getTempDir(); dest.setPath(tmpDir); GraphAlgorithm choose_root = new SpanningTreeRootChoose(); choose_root.setConf(context); choose_root.setSource(src); choose_root.setDestination(dest); choose_root.setMapperNum(getMapperNum()); choose_root.setReducerNum(getReducerNum()); choose_root.execute(); Path the_file = new Path(tmpDir.toString() + "/part-00000"); FileSystem client = FileSystem.get(context); if (!client.exists(the_file)) { throw new ProcessorExecutionException("Did not find the chosen vertex in " + the_file.toString()); } FSDataInputStream input_stream = client.open(the_file); ByteArrayOutputStream output_stream = new ByteArrayOutputStream(); IOUtils.copyBytes(input_stream, output_stream, context, false); String the_line = output_stream.toString(); String root_vertex_id = the_line.substring(SpanningTreeRootChoose.SPANNING_TREE_ROOT.length()).trim(); input_stream.close(); output_stream.close(); System.out.println("++++++> Chosen the root of spanning tree = " + root_vertex_id); while (true) { System.out.println("++++++>" + dirMgr.getSeqNum() + " Generate the spanning tree rooted at : (" + root_vertex_id + ") from " + tmpDir); src = new Graph(Graph.defaultGraph()); src.setPath(path_to_remember); tmpDir = dirMgr.getTempDir(); dest = new Graph(Graph.defaultGraph()); dest.setPath(tmpDir); path_to_remember = tmpDir; GraphAlgorithm spanning = new SpanningTreeGenerate(); spanning.setConf(context); spanning.setSource(src); spanning.setDestination(dest); spanning.setMapperNum(getMapperNum()); spanning.setReducerNum(getReducerNum()); spanning.setParameter(ConstantLabels.ROOT_ID, root_vertex_id); spanning.execute(); System.out.println("++++++>" + dirMgr.getSeqNum() + " Test spanning convergence"); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); tmpDir = dirMgr.getTempDir(); dest = new Graph(Graph.defaultGraph()); dest.setPath(tmpDir); GraphAlgorithm conv_tester = new SpanningConvergenceTest(); conv_tester.setConf(context); conv_tester.setSource(src); conv_tester.setDestination(dest); conv_tester.setMapperNum(getMapperNum()); conv_tester.setReducerNum(getReducerNum()); conv_tester.execute(); long vertexes_out_of_tree = MRConsoleReader.getMapOutputRecordNum(conv_tester.getFinalStatus()); System.out.println("++++++> number of vertexes out of the spanning tree = " + vertexes_out_of_tree); if (vertexes_out_of_tree == 0) { break; } } System.out.println("++++++> From spanning tree to sets of edges"); src = new Graph(Graph.defaultGraph()); src.setPath(path_to_remember); tmpDir = dirMgr.getTempDir(); dest = new Graph(Graph.defaultGraph()); dest.setPath(tmpDir); GraphAlgorithm tree2set = new Tree2EdgeSet(); tree2set.setConf(context); tree2set.setSource(src); tree2set.setDestination(dest); tree2set.setMapperNum(getMapperNum()); tree2set.setReducerNum(getReducerNum()); tree2set.execute(); long map_input_records_num = -1; long map_output_records_num = -2; Stack<Path> expanding_stack = new Stack<Path>(); do { System.out.println("++++++>" + dirMgr.getSeqNum() + ": EdgeSetMinorJoin"); GraphAlgorithm minorjoin = new EdgeSetMinorJoin(); minorjoin.setConf(context); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); dest = new Graph(Graph.defaultGraph()); tmpDir = dirMgr.getTempDir(); dest.setPath(tmpDir); minorjoin.setSource(src); minorjoin.setDestination(dest); minorjoin.setMapperNum(getMapperNum()); minorjoin.setReducerNum(getReducerNum()); minorjoin.execute(); expanding_stack.push(tmpDir); System.out.println("++++++>" + dirMgr.getSeqNum() + ": EdgeSetJoin"); GraphAlgorithm join = new EdgeSetJoin(); join.setConf(context); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); dest = new Graph(Graph.defaultGraph()); tmpDir = dirMgr.getTempDir(); dest.setPath(tmpDir); join.setSource(src); join.setDestination(dest); join.setMapperNum(getMapperNum()); join.setReducerNum(getReducerNum()); join.execute(); map_input_records_num = MRConsoleReader.getMapInputRecordNum(join.getFinalStatus()); map_output_records_num = MRConsoleReader.getMapOutputRecordNum(join.getFinalStatus()); System.out.println("++++++> map in/out : " + map_input_records_num + "/" + map_output_records_num); } while (map_input_records_num != map_output_records_num); while (expanding_stack.size() > 0) { System.out.println("++++++>" + dirMgr.getSeqNum() + ": EdgeSetExpand"); GraphAlgorithm expand = new EdgeSetExpand(); expand.setConf(context); src = new Graph(Graph.defaultGraph()); src.addPath(expanding_stack.pop()); src.addPath(tmpDir); dest = new Graph(Graph.defaultGraph()); tmpDir = dirMgr.getTempDir(); dest.setPath(tmpDir); expand.setSource(src); expand.setDestination(dest); expand.setMapperNum(getMapperNum()); expand.setReducerNum(getReducerNum()); expand.execute(); System.out.println("++++++>" + dirMgr.getSeqNum() + ": EdgeSetMinorExpand"); GraphAlgorithm minorexpand = new EdgeSetMinorExpand(); minorexpand.setConf(context); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); dest = new Graph(Graph.defaultGraph()); tmpDir = dirMgr.getTempDir(); dest.setPath(tmpDir); minorexpand.setSource(src); minorexpand.setDestination(dest); minorexpand.setMapperNum(getMapperNum()); minorexpand.setReducerNum(getReducerNum()); minorexpand.execute(); } System.out.println("++++++>" + dirMgr.getSeqNum() + ": EdgeSetSummarize"); GraphAlgorithm summarize = new EdgeSetSummarize(); summarize.setConf(context); src = new Graph(Graph.defaultGraph()); src.setPath(tmpDir); dest = new Graph(Graph.defaultGraph()); dest.setPath(getDestination().getPath()); summarize.setSource(src); summarize.setDestination(dest); summarize.setMapperNum(getMapperNum()); summarize.setReducerNum(getReducerNum()); summarize.execute(); dirMgr.deleteAll(); } catch (IOException e) { throw new ProcessorExecutionException(e); } catch (IllegalAccessException e) { throw new ProcessorExecutionException(e); } } | private static void copyObjects(File[] source, String target) { for (int i = 0; i < source.length; i++) { try { File inputFile = source[i]; File outputFile = new File(target + source[i].getName()); FileReader in = new FileReader(inputFile); FileWriter out = new FileWriter(outputFile); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); } catch (Exception ex) { Logger.error(ex.getClass() + " " + ex.getMessage()); for (int j = 0; j < ex.getStackTrace().length; j++) Logger.error(" " + ex.getStackTrace()[j].toString()); ex.printStackTrace(); } } } | 19,036 |
0 | public static final void main(String[] args) throws FileNotFoundException, IOException { ArrayList<String[]> result = new ArrayList<String[]>(); IStream is = new StreamImpl(); IOUtils.copy(new FileInputStream("H:\\7-项目预算表.xlsx"), is.getOutputStream()); int count = loadExcel(result, is, 0, 0, -1, 16, 1); System.out.println(count); for (String[] rs : result) { for (String r : rs) { System.out.print(r + "\t"); } System.out.println(); } } | public StringBuffer get(URL url) throws IOException { StringBuffer pageContents = new StringBuffer(); PDFReader reader = new PDFReader(url.openStream()); reader.open(); int pageCount = reader.getNumberOfPages(); for (int i = 0; i < pageCount; i++) pageContents.append(new String(reader.extractTextFromPage(i).getBytes(), "UTF-8")); reader.close(); return pageContents; } | 19,037 |
1 | public void testReaderWriterUC2() throws Exception { String inFile = "test_data/mri.png"; String outFile = "test_output/mri__smooth_testReaderWriter.png"; itkImageFileReaderUC2_Pointer reader = itkImageFileReaderUC2.itkImageFileReaderUC2_New(); itkImageFileWriterUC2_Pointer writer = itkImageFileWriterUC2.itkImageFileWriterUC2_New(); reader.SetFileName(inFile); writer.SetFileName(outFile); writer.SetInput(reader.GetOutput()); writer.Update(); } | static void conditionalCopyFile(File dst, File src) throws IOException { if (dst.equals(src)) return; if (!dst.isFile() || dst.lastModified() < src.lastModified()) { System.out.println("Copying " + src); InputStream is = new FileInputStream(src); OutputStream os = new FileOutputStream(dst); byte[] buf = new byte[8192]; int len; while ((len = is.read(buf)) > 0) os.write(buf, 0, len); os.close(); is.close(); } } | 19,038 |
1 | public void copyTo(String newname) throws IOException { FileChannel srcChannel = new FileInputStream(dosname).getChannel(); FileChannel dstChannel = new FileOutputStream(newname).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } | public static void TestDBStore() throws PDException, Exception { StoreDDBB StDB = new StoreDDBB("jdbc:derby://localhost:1527/Prodoc", "Prodoc", "Prodoc", "org.apache.derby.jdbc.ClientDriver;STBLOB"); System.out.println("Driver[" + StDB.getDriver() + "] Tabla [" + StDB.getTable() + "]"); StDB.Connect(); FileInputStream in = new FileInputStream("/tmp/readme.htm"); StDB.Insert("12345678-1", "1.0", in); int TAMBUFF = 1024 * 64; byte Buffer[] = new byte[TAMBUFF]; InputStream Bytes; Bytes = StDB.Retrieve("12345678-1", "1.0"); FileOutputStream fo = new FileOutputStream("/tmp/12345679.htm"); int readed = Bytes.read(Buffer); while (readed != -1) { fo.write(Buffer, 0, readed); readed = Bytes.read(Buffer); } Bytes.close(); fo.close(); StDB.Delete("12345678-1", "1.0"); StDB.Disconnect(); } | 19,039 |
0 | public static void reconstruct(final List files, final Map properties, final OutputStream fout, final String base_url, final String producer, final PageSize[] size, final List hf) throws CConvertException { OutputStream out = fout; OutputStream out2 = fout; boolean signed = false; OutputStream oldOut = null; File tmp = null; File tmp2 = null; try { tmp = File.createTempFile("yahp", "pdf"); tmp2 = File.createTempFile("yahp", "pdf"); oldOut = out; if ("true".equals(properties.get(IHtmlToPdfTransformer.USE_PDF_SIGNING))) { signed = true; out2 = new FileOutputStream(tmp2); } else { out2 = oldOut; } out = new FileOutputStream(tmp); com.lowagie.text.Document document = null; PdfCopy writer = null; boolean first = true; Map mapSizeDoc = new HashMap(); int totalPage = 0; for (int i = 0; i < files.size(); i++) { final File fPDF = (File) files.get(i); final PdfReader reader = new PdfReader(fPDF.getAbsolutePath()); reader.consolidateNamedDestinations(); final int n = reader.getNumberOfPages(); if (first) { first = false; document = new com.lowagie.text.Document(reader.getPageSizeWithRotation(1)); writer = new PdfCopy(document, out); writer.setPdfVersion(PdfWriter.VERSION_1_3); writer.setFullCompression(); if ("true".equals(properties.get(IHtmlToPdfTransformer.USE_PDF_ENCRYPTION))) { final String password = (String) properties.get(IHtmlToPdfTransformer.PDF_ENCRYPTION_PASSWORD); final int securityType = CDocumentReconstructor.getSecurityFlags(properties); writer.setEncryption(PdfWriter.STRENGTH128BITS, password, null, securityType); } final String title = (String) properties.get(IHtmlToPdfTransformer.PDF_TITLE); if (title != null) { document.addTitle(title); } else if (base_url != null) { document.addTitle(base_url); } final String creator = (String) properties.get(IHtmlToPdfTransformer.PDF_CREATOR); if (creator != null) { document.addCreator(creator); } else { document.addCreator(IHtmlToPdfTransformer.VERSION); } final String author = (String) properties.get(IHtmlToPdfTransformer.PDF_AUTHOR); if (author != null) { document.addAuthor(author); } final String sproducer = (String) properties.get(IHtmlToPdfTransformer.PDF_PRODUCER); if (sproducer != null) { document.addProducer(sproducer); } else { document.addProducer(IHtmlToPdfTransformer.VERSION + " - http://www.allcolor.org/YaHPConverter/ - " + producer); } document.open(); } PdfImportedPage page; for (int j = 0; j < n; ) { ++j; totalPage++; mapSizeDoc.put("" + totalPage, "" + i); page = writer.getImportedPage(reader, j); writer.addPage(page); } } document.close(); out.flush(); out.close(); { final PdfReader reader = new PdfReader(tmp.getAbsolutePath()); ; final int n = reader.getNumberOfPages(); final PdfStamper stp = new PdfStamper(reader, out2); int i = 0; BaseFont.createFont(BaseFont.HELVETICA, BaseFont.WINANSI, BaseFont.EMBEDDED); final CHtmlToPdfFlyingSaucerTransformer trans = new CHtmlToPdfFlyingSaucerTransformer(); while (i < n) { i++; int indexSize = Integer.parseInt((String) mapSizeDoc.get("" + i)); final int[] dsize = size[indexSize].getSize(); final int[] dmargin = size[indexSize].getMargin(); for (final Iterator it = hf.iterator(); it.hasNext(); ) { final CHeaderFooter chf = (CHeaderFooter) it.next(); if (chf.getSfor().equals(CHeaderFooter.ODD_PAGES) && (i % 2 == 0)) { continue; } else if (chf.getSfor().equals(CHeaderFooter.EVEN_PAGES) && (i % 2 != 0)) { continue; } final String text = chf.getContent().replaceAll("<pagenumber>", "" + i).replaceAll("<pagecount>", "" + n); final PdfContentByte over = stp.getOverContent(i); final ByteArrayOutputStream bbout = new ByteArrayOutputStream(); if (chf.getType().equals(CHeaderFooter.HEADER)) { trans.transform(new ByteArrayInputStream(text.getBytes("utf-8")), base_url, new PageSize(dsize[0] - (dmargin[0] + dmargin[1]), dmargin[3]), new ArrayList(), properties, bbout); } else if (chf.getType().equals(CHeaderFooter.FOOTER)) { trans.transform(new ByteArrayInputStream(text.getBytes("utf-8")), base_url, new PageSize(dsize[0] - (dmargin[0] + dmargin[1]), dmargin[2]), new ArrayList(), properties, bbout); } final PdfReader readerHF = new PdfReader(bbout.toByteArray()); if (chf.getType().equals(CHeaderFooter.HEADER)) { over.addTemplate(stp.getImportedPage(readerHF, 1), dmargin[0], dsize[1] - dmargin[3]); } else if (chf.getType().equals(CHeaderFooter.FOOTER)) { over.addTemplate(stp.getImportedPage(readerHF, 1), dmargin[0], 0); } readerHF.close(); } } stp.close(); } try { out2.flush(); } catch (Exception ignore) { } finally { try { out2.close(); } catch (Exception ignore) { } } if (signed) { final String keypassword = (String) properties.get(IHtmlToPdfTransformer.PDF_SIGNING_PRIVATE_KEY_PASSWORD); final String password = (String) properties.get(IHtmlToPdfTransformer.PDF_ENCRYPTION_PASSWORD); final String keyStorepassword = (String) properties.get(IHtmlToPdfTransformer.PDF_SIGNING_KEYSTORE_PASSWORD); final String privateKeyFile = (String) properties.get(IHtmlToPdfTransformer.PDF_SIGNING_PRIVATE_KEY_FILE); final String reason = (String) properties.get(IHtmlToPdfTransformer.PDF_SIGNING_REASON); final String location = (String) properties.get(IHtmlToPdfTransformer.PDF_SIGNING_LOCATION); final boolean selfSigned = !"false".equals(properties.get(IHtmlToPdfTransformer.USE_PDF_SELF_SIGNING)); PdfReader reader = null; if (password != null) { reader = new PdfReader(tmp2.getAbsolutePath(), password.getBytes()); } else { reader = new PdfReader(tmp2.getAbsolutePath()); } final KeyStore ks = selfSigned ? KeyStore.getInstance(KeyStore.getDefaultType()) : KeyStore.getInstance("pkcs12"); ks.load(new FileInputStream(privateKeyFile), keyStorepassword.toCharArray()); final String alias = (String) ks.aliases().nextElement(); final PrivateKey key = (PrivateKey) ks.getKey(alias, keypassword.toCharArray()); final Certificate chain[] = ks.getCertificateChain(alias); final PdfStamper stp = PdfStamper.createSignature(reader, oldOut, '\0'); if ("true".equals(properties.get(IHtmlToPdfTransformer.USE_PDF_ENCRYPTION))) { stp.setEncryption(PdfWriter.STRENGTH128BITS, password, null, CDocumentReconstructor.getSecurityFlags(properties)); } final PdfSignatureAppearance sap = stp.getSignatureAppearance(); if (selfSigned) { sap.setCrypto(key, chain, null, PdfSignatureAppearance.SELF_SIGNED); } else { sap.setCrypto(key, chain, null, PdfSignatureAppearance.WINCER_SIGNED); } if (reason != null) { sap.setReason(reason); } if (location != null) { sap.setLocation(location); } stp.close(); oldOut.flush(); } } catch (final Exception e) { throw new CConvertException("ERROR: An Exception occured while reconstructing the pdf document: " + e.getMessage(), e); } finally { try { tmp.delete(); } catch (final Exception ignore) { } try { tmp2.delete(); } catch (final Exception ignore) { } } } | public void mouseClicked(MouseEvent e) { if (e.getClickCount() == 2) { int index = lst.locationToIndex(e.getPoint()); try { String location = (String) lst.getModel().getElementAt(index), refStr, startStr, stopStr; if (location.indexOf("at chr") != -1) { location = location.substring(location.indexOf("at ") + 3); refStr = location.substring(0, location.indexOf(":")); location = location.substring(location.indexOf(":") + 1); startStr = location.substring(0, location.indexOf("-")); stopStr = location.substring(location.indexOf("-") + 1); moveViewer(refStr, Integer.parseInt(startStr), Integer.parseInt(stopStr)); } else { String hgsid = chooseHGVersion(selPanel.dsn); URL connectURL = new URL("http://genome.ucsc.edu/cgi-bin/hgTracks?hgsid=" + hgsid + "&position=" + location); InputStream urlStream = connectURL.openStream(); BufferedReader reader = new BufferedReader(new InputStreamReader(urlStream)); readUCSCLocation(location, reader); } } catch (Exception exc) { exc.printStackTrace(); } } } | 19,040 |
0 | protected boolean process(final TranscodeJobImpl job) { TranscodePipe pipe = null; current_job = job; DeviceImpl device = job.getDevice(); device.setTranscoding(true); try { job.starts(); TranscodeProvider provider = job.getProfile().getProvider(); final TranscodeException[] error = { null }; TranscodeProfile profile = job.getProfile(); final TranscodeFileImpl transcode_file = job.getTranscodeFile(); TranscodeProviderAnalysis provider_analysis; boolean xcode_required; if (provider == null) { xcode_required = false; provider_analysis = null; } else { provider_analysis = analyse(job); xcode_required = provider_analysis.getBooleanProperty(TranscodeProviderAnalysis.PT_TRANSCODE_REQUIRED); int tt_req; if (job.isStream()) { tt_req = TranscodeTarget.TRANSCODE_ALWAYS; } else { tt_req = job.getTranscodeRequirement(); if (device instanceof TranscodeTarget) { if (provider_analysis.getLongProperty(TranscodeProviderAnalysis.PT_VIDEO_HEIGHT) == 0) { if (((TranscodeTarget) device).isAudioCompatible(transcode_file)) { tt_req = TranscodeTarget.TRANSCODE_NEVER; } } } } if (tt_req == TranscodeTarget.TRANSCODE_NEVER) { xcode_required = false; } else if (tt_req == TranscodeTarget.TRANSCODE_ALWAYS) { xcode_required = true; provider_analysis.setBooleanProperty(TranscodeProviderAnalysis.PT_FORCE_TRANSCODE, true); } } if (xcode_required) { final AESemaphore xcode_sem = new AESemaphore("xcode:proc"); final TranscodeProviderJob[] provider_job = { null }; TranscodeProviderAdapter xcode_adapter = new TranscodeProviderAdapter() { private boolean resolution_updated; private final int ETA_AVERAGE_SIZE = 10; private int last_eta; private int eta_samples; private Average eta_average = AverageFactory.MovingAverage(ETA_AVERAGE_SIZE); private int last_percent; public void updateProgress(int percent, int eta_secs, int new_width, int new_height) { last_eta = eta_secs; last_percent = percent; TranscodeProviderJob prov_job = provider_job[0]; if (prov_job == null) { return; } int job_state = job.getState(); if (job_state == TranscodeJob.ST_CANCELLED || job_state == TranscodeJob.ST_REMOVED) { prov_job.cancel(); } else if (paused || job_state == TranscodeJob.ST_PAUSED) { prov_job.pause(); } else { if (job_state == TranscodeJob.ST_RUNNING) { prov_job.resume(); } job.updateProgress(percent, eta_secs); prov_job.setMaxBytesPerSecond(max_bytes_per_sec); if (!resolution_updated) { if (new_width > 0 && new_height > 0) { transcode_file.setResolution(new_width, new_height); resolution_updated = true; } } } } public void streamStats(long connect_rate, long write_speed) { if (Constants.isOSX && job.getEnableAutoRetry() && job.canUseDirectInput() && job.getAutoRetryCount() == 0) { if (connect_rate > 5 && last_percent < 100) { long eta = (long) eta_average.update(last_eta); eta_samples++; if (eta_samples >= ETA_AVERAGE_SIZE) { long total_time = (eta * 100) / (100 - last_percent); long total_write = total_time * write_speed; DiskManagerFileInfo file = job.getFile(); long length = file.getLength(); if (length > 0) { double over_write = ((double) total_write) / length; if (over_write > 5.0) { failed(new TranscodeException("Overwrite limit exceeded, abandoning transcode")); provider_job[0].cancel(); } } } } else { eta_samples = 0; } } } public void failed(TranscodeException e) { if (error[0] == null) { error[0] = e; } xcode_sem.release(); } public void complete() { xcode_sem.release(); } }; boolean direct_input = job.useDirectInput(); if (job.isStream()) { pipe = new TranscodePipeStreamSource2(new TranscodePipeStreamSource2.streamListener() { public void gotStream(InputStream is) { job.setStream(is); } }); provider_job[0] = provider.transcode(xcode_adapter, provider_analysis, direct_input, job.getFile(), profile, new URL("tcp://127.0.0.1:" + pipe.getPort())); } else { File output_file = transcode_file.getCacheFile(); provider_job[0] = provider.transcode(xcode_adapter, provider_analysis, direct_input, job.getFile(), profile, output_file.toURI().toURL()); } provider_job[0].setMaxBytesPerSecond(max_bytes_per_sec); TranscodeQueueListener listener = new TranscodeQueueListener() { public void jobAdded(TranscodeJob job) { } public void jobChanged(TranscodeJob changed_job) { if (changed_job == job) { int state = job.getState(); if (state == TranscodeJob.ST_PAUSED) { provider_job[0].pause(); } else if (state == TranscodeJob.ST_RUNNING) { provider_job[0].resume(); } else if (state == TranscodeJob.ST_CANCELLED || state == TranscodeJob.ST_STOPPED) { provider_job[0].cancel(); } } } public void jobRemoved(TranscodeJob removed_job) { if (removed_job == job) { provider_job[0].cancel(); } } }; try { addListener(listener); xcode_sem.reserve(); } finally { removeListener(listener); } if (error[0] != null) { throw (error[0]); } } else { DiskManagerFileInfo source = job.getFile(); transcode_file.setTranscodeRequired(false); if (job.isStream()) { PluginInterface av_pi = PluginInitializer.getDefaultInterface().getPluginManager().getPluginInterfaceByID("azupnpav"); if (av_pi == null) { throw (new TranscodeException("Media Server plugin not found")); } IPCInterface av_ipc = av_pi.getIPC(); String url_str = (String) av_ipc.invoke("getContentURL", new Object[] { source }); if (url_str == null || url_str.length() == 0) { File source_file = source.getFile(); if (source_file.exists()) { job.setStream(new BufferedInputStream(new FileInputStream(source_file))); } else { throw (new TranscodeException("No UPnPAV URL and file doesn't exist")); } } else { URL source_url = new URL(url_str); job.setStream(source_url.openConnection().getInputStream()); } } else { if (device.getAlwaysCacheFiles()) { PluginInterface av_pi = PluginInitializer.getDefaultInterface().getPluginManager().getPluginInterfaceByID("azupnpav"); if (av_pi == null) { throw (new TranscodeException("Media Server plugin not found")); } IPCInterface av_ipc = av_pi.getIPC(); String url_str = (String) av_ipc.invoke("getContentURL", new Object[] { source }); InputStream is; long length; if (url_str == null || url_str.length() == 0) { File source_file = source.getFile(); if (source_file.exists()) { is = new BufferedInputStream(new FileInputStream(source_file)); length = source_file.length(); } else { throw (new TranscodeException("No UPnPAV URL and file doesn't exist")); } } else { URL source_url = new URL(url_str); URLConnection connection = source_url.openConnection(); is = source_url.openConnection().getInputStream(); String s = connection.getHeaderField("content-length"); if (s != null) { length = Long.parseLong(s); } else { length = -1; } } OutputStream os = null; final boolean[] cancel_copy = { false }; TranscodeQueueListener copy_listener = new TranscodeQueueListener() { public void jobAdded(TranscodeJob job) { } public void jobChanged(TranscodeJob changed_job) { if (changed_job == job) { int state = job.getState(); if (state == TranscodeJob.ST_PAUSED) { } else if (state == TranscodeJob.ST_RUNNING) { } else if (state == TranscodeJob.ST_CANCELLED || state == TranscodeJob.ST_STOPPED) { cancel_copy[0] = true; } } } public void jobRemoved(TranscodeJob removed_job) { if (removed_job == job) { cancel_copy[0] = true; } } }; try { addListener(copy_listener); os = new FileOutputStream(transcode_file.getCacheFile()); long total_copied = 0; byte[] buffer = new byte[128 * 1024]; while (true) { if (cancel_copy[0]) { throw (new TranscodeException("Copy cancelled")); } int len = is.read(buffer); if (len <= 0) { break; } os.write(buffer, 0, len); total_copied += len; if (length > 0) { job.updateProgress((int) (total_copied * 100 / length), -1); } total_copied += len; } } finally { try { is.close(); } catch (Throwable e) { Debug.out(e); } try { if (os != null) { os.close(); } } catch (Throwable e) { Debug.out(e); } removeListener(copy_listener); } } } } job.complete(); return (true); } catch (Throwable e) { job.failed(e); e.printStackTrace(); if (!job.isStream() && job.getEnableAutoRetry() && job.getAutoRetryCount() == 0 && job.canUseDirectInput() && !job.useDirectInput()) { log("Auto-retrying transcode with direct input"); job.setUseDirectInput(); job.setAutoRetry(true); queue_sem.release(); } return (false); } finally { if (pipe != null) { pipe.destroy(); } device.setTranscoding(false); current_job = null; } } | public String sendRequest(java.lang.String servletName, java.lang.String request) { String reqxml = ""; org.jdom.Document retdoc = null; String myurl = java.util.prefs.Preferences.systemRoot().get("serverurl", ""); String myport = ""; myport = java.util.prefs.Preferences.systemRoot().get("portno", "8080"); if (myport == null || myport.trim().equals("")) { myport = "80"; } if (this.serverURL == null) { try { java.net.URL codebase = newgen.presentation.NewGenMain.getAppletInstance().getCodeBase(); if (codebase != null) serverURL = codebase.getHost(); else serverURL = "localhost"; } catch (Exception exp) { exp.printStackTrace(); serverURL = "localhost"; } newgen.presentation.component.IPAddressPortNoDialog ipdig = new newgen.presentation.component.IPAddressPortNoDialog(myurl, myport); ipdig.show(); serverURL = myurl = ipdig.getIPAddress(); myport = ipdig.getPortNo(); java.util.prefs.Preferences.systemRoot().put("serverurl", serverURL); java.util.prefs.Preferences.systemRoot().put("portno", myport); System.out.println(serverURL); } try { System.out.println("http://" + serverURL + ":" + myport + "/newgenlibctxt/" + servletName); java.net.URL url = new java.net.URL("http://" + serverURL + ":" + myport + "/newgenlibctxt/" + servletName); java.net.URLConnection urlconn = (java.net.URLConnection) url.openConnection(); urlconn.setDoOutput(true); urlconn.setRequestProperty("Content-type", "text/xml; charset=UTF-8"); java.io.OutputStream os = urlconn.getOutputStream(); String req1xml = request; java.util.zip.CheckedOutputStream cos = new java.util.zip.CheckedOutputStream(os, new java.util.zip.Adler32()); java.util.zip.GZIPOutputStream gop = new java.util.zip.GZIPOutputStream(cos); java.io.OutputStreamWriter dos = new java.io.OutputStreamWriter(gop, "UTF-8"); System.out.println("#########***********$$$$$$$$##########" + req1xml); dos.write(req1xml); dos.flush(); dos.close(); System.out.println("url conn: " + urlconn.getContentEncoding() + " " + urlconn.getContentType()); java.io.InputStream ios = urlconn.getInputStream(); java.util.zip.CheckedInputStream cis = new java.util.zip.CheckedInputStream(ios, new java.util.zip.Adler32()); java.util.zip.GZIPInputStream gip = new java.util.zip.GZIPInputStream(cis); java.io.InputStreamReader br = new java.io.InputStreamReader(gip, "UTF-8"); retdoc = (new org.jdom.input.SAXBuilder()).build(br); } catch (java.net.ConnectException conexp) { javax.swing.JOptionPane.showMessageDialog(null, newgen.presentation.NewGenMain.getAppletInstance().getMyResource().getString("ConnectExceptionMessage"), "Critical error", javax.swing.JOptionPane.ERROR_MESSAGE); } catch (Exception exp) { exp.printStackTrace(System.out); TroubleShootConnectivity troubleShoot = new TroubleShootConnectivity(); } System.out.println(reqxml); return (new org.jdom.output.XMLOutputter()).outputString(retdoc); } | 19,041 |
0 | public static int[] rank(double[] data) { int[] rank = new int[data.length]; for (int i = 0; i < data.length; i++) rank[i] = i; boolean swapped; double dtmp; int i, j, itmp; for (i = 0; i < data.length - 1; i++) { swapped = false; for (j = 0; j < data.length - 1 - i; j++) { if (data[j] < data[j + 1]) { dtmp = data[j]; data[j] = data[j + 1]; data[j + 1] = dtmp; itmp = rank[j]; rank[j] = rank[j + 1]; rank[j + 1] = itmp; swapped = true; } } } return rank; } | public void mode(String env) { String path = this.envs.get(env); InputStream in = null; try { URL url = ResourceUtil.getResourceNoException(path); if (url == null) { throw new IllegalEnvironmentException(env); } load(URLUtil.openStream(url)); } catch (IOException e) { throw new IllegalEnvironmentException(env, e); } finally { StreamUtil.close(in); } } | 19,042 |
0 | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | public static Dimension getJPEGDimension(String urls) throws IOException { URL url; Dimension d = null; try { url = new URL(urls); InputStream fis = url.openStream(); if (fis.read() != 255 || fis.read() != 216) throw new RuntimeException("SOI (Start Of Image) marker 0xff 0xd8 missing"); while (fis.read() == 255) { int marker = fis.read(); int len = fis.read() << 8 | fis.read(); if (marker == 192) { fis.skip(1); int height = fis.read() << 8 | fis.read(); int width = fis.read() << 8 | fis.read(); d = new Dimension(width, height); break; } fis.skip(len - 2); } fis.close(); } catch (MalformedURLException e) { e.printStackTrace(); } return d; } | 19,043 |
1 | private InputStream open(String url) throws IOException { debug(url); if (!useCache) { return new URL(url).openStream(); } File f = new File(System.getProperty("java.io.tmpdir", "."), Digest.SHA1.encrypt(url) + ".xml"); debug("Cache : " + f); if (f.exists()) { return new FileInputStream(f); } InputStream in = new URL(url).openStream(); OutputStream out = new FileOutputStream(f); IOUtils.copyTo(in, out); out.flush(); out.close(); in.close(); return new FileInputStream(f); } | public void run() { try { Socket socket = getSocket(); System.out.println("opening socket to " + address + " on " + port); InputStream in = socket.getInputStream(); for (; ; ) { FileTransferHeader header = FileTransferHeader.readHeader(in); if (header == null) break; System.out.println("header: " + header); String[] parts = header.getFilename().getSegments(); String filename; if (parts.length > 0) filename = "dl-" + parts[parts.length - 1]; else filename = "dl-" + session.getScreenname(); System.out.println("writing to file " + filename); long sum = 0; if (new File(filename).exists()) { FileInputStream fis = new FileInputStream(filename); byte[] block = new byte[10]; for (int i = 0; i < block.length; ) { int count = fis.read(block); if (count == -1) break; i += count; } FileTransferChecksum summer = new FileTransferChecksum(); summer.update(block, 0, 10); sum = summer.getValue(); } FileChannel fileChannel = new FileOutputStream(filename).getChannel(); FileTransferHeader outHeader = new FileTransferHeader(header); outHeader.setHeaderType(FileTransferHeader.HEADERTYPE_ACK); outHeader.setIcbmMessageId(cookie); outHeader.setBytesReceived(0); outHeader.setReceivedChecksum(sum); OutputStream socketOut = socket.getOutputStream(); System.out.println("sending header: " + outHeader); outHeader.write(socketOut); for (int i = 0; i < header.getFileSize(); ) { long transferred = fileChannel.transferFrom(Channels.newChannel(in), 0, header.getFileSize() - i); System.out.println("transferred " + transferred); if (transferred == -1) return; i += transferred; } System.out.println("finished transfer!"); fileChannel.close(); FileTransferHeader doneHeader = new FileTransferHeader(header); doneHeader.setHeaderType(FileTransferHeader.HEADERTYPE_RECEIVED); doneHeader.setFlags(doneHeader.getFlags() | FileTransferHeader.FLAG_DONE); doneHeader.setBytesReceived(doneHeader.getBytesReceived() + 1); doneHeader.setIcbmMessageId(cookie); doneHeader.setFilesLeft(doneHeader.getFilesLeft() - 1); doneHeader.write(socketOut); if (doneHeader.getFilesLeft() - 1 <= 0) { socket.close(); break; } } } catch (IOException e) { e.printStackTrace(); return; } } | 19,044 |
0 | public void fileUpload() throws Exception { DefaultHttpClient httpclient = new DefaultHttpClient(); HttpPost httppost = new HttpPost(postURL); MultipartEntity reqEntity = new MultipartEntity(HttpMultipartMode.BROWSER_COMPATIBLE); reqEntity.addPart("fff", new MonitoredFileBody(file, uploadProgress)); httppost.setEntity(reqEntity); NULogger.getLogger().info("Now uploading your file into 2shared.com. Please wait......................"); status = UploadStatus.UPLOADING; HttpResponse response = httpclient.execute(httppost); status = UploadStatus.GETTINGLINK; HttpEntity resEntity = response.getEntity(); if (resEntity != null) { String page = EntityUtils.toString(resEntity); NULogger.getLogger().log(Level.INFO, "PAGE :{0}", page); } } | public void serveResource(HTTPResource resource, HttpServletRequest request, HttpServletResponse response) throws java.io.IOException { Image image = (Image) resource; log.debug("Serving: " + image); URL url = image.getResourceURL(); int idx = url.toString().lastIndexOf("."); String fn = image.getId() + url.toString().substring(idx); String cd = "filename=\"" + fn + "\""; response.setContentType(image.getContentType()); log.debug("LOADING: " + url); IOUtil.copyData(response.getOutputStream(), url.openStream()); } | 19,045 |
0 | char[] DigestCalcHA1(String algorithm, String userName, String realm, String password, String nonce, String clientNonce) throws SaslException { byte[] hash; try { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(userName.getBytes("UTF-8")); md.update(":".getBytes("UTF-8")); md.update(realm.getBytes("UTF-8")); md.update(":".getBytes("UTF-8")); md.update(password.getBytes("UTF-8")); hash = md.digest(); if ("md5-sess".equals(algorithm)) { md.update(hash); md.update(":".getBytes("UTF-8")); md.update(nonce.getBytes("UTF-8")); md.update(":".getBytes("UTF-8")); md.update(clientNonce.getBytes("UTF-8")); hash = md.digest(); } } catch (NoSuchAlgorithmException e) { throw new SaslException("No provider found for MD5 hash", e); } catch (UnsupportedEncodingException e) { throw new SaslException("UTF-8 encoding not supported by platform.", e); } return convertToHex(hash); } | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | 19,046 |
1 | public static void copyFile(final File sourceFile, final File destFile) throws IOException { if (destFile.getParentFile() != null && !destFile.getParentFile().mkdirs()) { LOG.error("GeneralHelper.copyFile(): Cannot create parent directories from " + destFile); } FileInputStream fIn = null; FileOutputStream fOut = null; FileChannel source = null; FileChannel destination = null; try { fIn = new FileInputStream(sourceFile); source = fIn.getChannel(); fOut = new FileOutputStream(destFile); destination = fOut.getChannel(); long transfered = 0; final long bytes = source.size(); while (transfered < bytes) { transfered += destination.transferFrom(source, 0, source.size()); destination.position(transfered); } } finally { if (source != null) { source.close(); } else if (fIn != null) { fIn.close(); } if (destination != null) { destination.close(); } else if (fOut != null) { fOut.close(); } } } | public void sendFile(File file, String filename, String contentType) throws SearchLibException { response.setContentType(contentType); response.addHeader("Content-Disposition", "attachment; filename=" + filename); FileInputStream inputStream = null; try { inputStream = new FileInputStream(file); ServletOutputStream outputStream = getOutputStream(); IOUtils.copy(inputStream, outputStream); outputStream.close(); } catch (FileNotFoundException e) { throw new SearchLibException(e); } catch (IOException e) { throw new SearchLibException(e); } finally { if (inputStream != null) IOUtils.closeQuietly(inputStream); } } | 19,047 |
0 | private String executeHttpPreload(HttpResponse response, String xml) throws Exception { GadgetSpec spec = new GadgetSpec(GADGET_URL, xml); RecordingRequestPipeline pipeline = new RecordingRequestPipeline(response); PipelinedDataPreloader preloader = new PipelinedDataPreloader(pipeline, containerConfig); view = "profile"; Gadget gadget = new Gadget().setContext(context).setSpec(spec).setCurrentView(spec.getView("profile")); PipelinedData.Batch batch = getBatch(gadget); Collection<Callable<PreloadedData>> tasks = preloader.createPreloadTasks(context, batch); assertEquals(1, tasks.size()); assertEquals(0, pipeline.requests.size()); Collection<Object> result = tasks.iterator().next().call().toJson(); assertEquals(1, result.size()); assertEquals(1, pipeline.requests.size()); HttpRequest request = pipeline.requests.get(0); assertEquals(HTTP_REQUEST_URL, request.getUri().toString()); assertEquals("POST", request.getMethod()); assertEquals(60, request.getCacheTtl()); return result.iterator().next().toString(); } | public void executeRequest(OperationContext context) throws Throwable { long t1 = System.currentTimeMillis(); GetPortrayMapCapabilitiesParams params = context.getRequestOptions().getGetPortrayMapCapabilitiesOptions(); String srvCfg = context.getRequestContext().getApplicationConfiguration().getCatalogConfiguration().getParameters().getValue("openls.portrayMap"); String sUrl = srvCfg + "?f=json&pretty=true"; URL url = new URL(sUrl); URLConnection conn = url.openConnection(); String line = ""; String sResponse = ""; InputStream is = conn.getInputStream(); InputStreamReader isr = new InputStreamReader(is); BufferedReader rd = new BufferedReader(isr); while ((line = rd.readLine()) != null) { sResponse += line; } rd.close(); parseResponse(params, sResponse); long t2 = System.currentTimeMillis(); LOGGER.info("PERFORMANCE: " + (t2 - t1) + " ms spent performing service"); } | 19,048 |
1 | private void sendData(HttpServletResponse response, MediaBean mediaBean) throws IOException { if (logger.isInfoEnabled()) logger.info("sendData[" + mediaBean + "]"); response.setContentLength(mediaBean.getContentLength()); response.setContentType(mediaBean.getContentType()); response.addHeader("Last-Modified", mediaBean.getLastMod()); response.addHeader("Cache-Control", "must-revalidate"); response.addHeader("content-disposition", "attachment, filename=" + (new Date()).getTime() + "_" + mediaBean.getFileName()); byte[] content = mediaBean.getContent(); InputStream is = null; OutputStream os = null; try { os = response.getOutputStream(); is = new ByteArrayInputStream(content); IOUtils.copy(is, os); } catch (IOException e) { logger.error(e, e); } finally { if (is != null) try { is.close(); } catch (IOException e) { } if (os != null) try { os.close(); } catch (IOException e) { } } } | public static void concatenateOutput(File[] inputFiles, File outputFile) { int numberOfInputFiles = inputFiles.length; byte lf = (byte) '\n'; try { FileOutputStream fos = new FileOutputStream(outputFile); FileChannel outfc = fos.getChannel(); System.out.println("Processing " + inputFiles[0].getPath()); FileInputStream fis = new FileInputStream(inputFiles[0]); FileChannel infc = fis.getChannel(); int bufferCapacity = 100000; ByteBuffer bb = ByteBuffer.allocate(bufferCapacity); bb.clear(); while (infc.read(bb) > 0) { bb.flip(); outfc.write(bb); bb.clear(); } infc.close(); for (int f = 1; f < numberOfInputFiles; f++) { System.out.println("Processing " + inputFiles[f].getPath()); fis = new FileInputStream(inputFiles[f]); infc = fis.getChannel(); bb.clear(); int bytesread = infc.read(bb); bb.flip(); byte b = bb.get(); while (b != lf) { b = bb.get(); } outfc.write(bb); bb.clear(); while (infc.read(bb) > 0) { bb.flip(); outfc.write(bb); bb.clear(); } infc.close(); } outfc.close(); } catch (IOException e) { e.printStackTrace(); System.exit(-1); } } | 19,049 |
1 | public static synchronized String encrypt(String plaintext) throws NoSuchAlgorithmException, UnsupportedEncodingException { MessageDigest md = null; md = MessageDigest.getInstance("SHA"); md.update(plaintext.getBytes("UTF-8")); byte raw[] = md.digest(); String hash = (new BASE64Encoder()).encode(raw); return hash; } | public boolean check(String credentials) throws IOException { if (credentials == null) return true; try { MessageDigest md = MessageDigest.getInstance("MD5"); md.reset(); md.update(method.getBytes("ISO-8859-1")); md.update((byte) ':'); md.update(uri.getBytes("ISO-8859-1")); byte[] ha2 = md.digest(); md.update(credentials.getBytes("ISO-8859-1")); md.update((byte) ':'); md.update(nonce.getBytes("ISO-8859-1")); md.update((byte) ':'); md.update(MessageDigester.byteArrayToHex(ha2).getBytes("ISO-8859-1")); byte[] digest = md.digest(); return (MessageDigester.byteArrayToHex(digest).equalsIgnoreCase(response)); } catch (NoSuchAlgorithmException e) { throw new RuntimeException("MD5 not supported"); } catch (UnsupportedEncodingException e) { throw new RuntimeException("Encoding not supported"); } } | 19,050 |
1 | public void processSaveHolding(Holding holdingBean, AuthSession authSession) { if (authSession == null) { return; } DatabaseAdapter dbDyn = null; PreparedStatement ps = null; try { dbDyn = DatabaseAdapter.getInstance(); String sql = "UPDATE WM_LIST_HOLDING " + "SET " + " full_name_HOLDING=?, " + " NAME_HOLDING=? " + "WHERE ID_HOLDING = ? and ID_HOLDING in "; switch(dbDyn.getFamaly()) { case DatabaseManager.MYSQL_FAMALY: String idList = authSession.getGrantedHoldingId(); sql += " (" + idList + ") "; break; default: sql += "(select z1.ID_ROAD from v$_read_list_road z1 where z1.user_login = ?)"; break; } ps = dbDyn.prepareStatement(sql); int num = 1; ps.setString(num++, holdingBean.getName()); ps.setString(num++, holdingBean.getShortName()); RsetTools.setLong(ps, num++, holdingBean.getId()); switch(dbDyn.getFamaly()) { case DatabaseManager.MYSQL_FAMALY: break; default: ps.setString(num++, authSession.getUserLogin()); break; } int i1 = ps.executeUpdate(); if (log.isDebugEnabled()) log.debug("Count of updated record - " + i1); processDeleteRelatedCompany(dbDyn, holdingBean, authSession); processInsertRelatedCompany(dbDyn, holdingBean, authSession); dbDyn.commit(); } catch (Exception e) { try { if (dbDyn != null) dbDyn.rollback(); } catch (Exception e001) { } String es = "Error save holding"; log.error(es, e); throw new IllegalStateException(es, e); } finally { DatabaseManager.close(dbDyn, ps); dbDyn = null; ps = null; } } | public void deleteUser(User portalUserBean, AuthSession authSession) { DatabaseAdapter dbDyn = null; PreparedStatement ps = null; try { dbDyn = DatabaseAdapter.getInstance(); if (portalUserBean.getUserId() == null) throw new IllegalArgumentException("id of portal user is null"); String sql = "update WM_LIST_USER " + "set is_deleted=1 " + "where ID_USER=? and is_deleted = 0 and ID_FIRM in "; switch(dbDyn.getFamaly()) { case DatabaseManager.MYSQL_FAMALY: String idList = authSession.getGrantedCompanyId(); sql += " (" + idList + ") "; break; default: sql += "(select z1.ID_FIRM from v$_read_list_firm z1 where z1.user_login = ?)"; break; } ps = dbDyn.prepareStatement(sql); int num = 1; ps.setLong(num++, portalUserBean.getUserId()); switch(dbDyn.getFamaly()) { case DatabaseManager.MYSQL_FAMALY: break; default: ps.setString(num++, authSession.getUserLogin()); break; } int i1 = ps.executeUpdate(); if (log.isDebugEnabled()) log.debug("Count of deleted records - " + i1); dbDyn.commit(); } catch (Exception e) { try { if (dbDyn != null) { dbDyn.rollback(); } } catch (Exception e001) { } String es = "Error delete of portal user"; log.error(es, e); throw new IllegalStateException(es, e); } finally { DatabaseManager.close(dbDyn, ps); dbDyn = null; ps = null; } } | 19,051 |
1 | public void alterarQuestaoDiscursiva(QuestaoDiscursiva q) throws SQLException { PreparedStatement stmt = null; String sql = "UPDATE discursiva SET gabarito=? WHERE id_questao=?"; try { stmt = conexao.prepareStatement(sql); stmt.setString(1, q.getGabarito()); stmt.setInt(2, q.getIdQuestao()); stmt.executeUpdate(); conexao.commit(); } catch (SQLException e) { conexao.rollback(); throw e; } } | public SukuData updatePerson(String usertext, SukuData req) { String insPers; String userid = Utils.toUsAscii(usertext); if (userid != null && userid.length() > 16) { userid = userid.substring(0, 16); } StringBuilder sb = new StringBuilder(); sb.append("insert into unit (pid,tag,privacy,groupid,sex,sourcetext,privatetext,userrefn"); if (userid != null) { sb.append(",createdby"); } sb.append(") values (?,?,?,?,?,?,?,? "); if (userid != null) { sb.append(",'" + userid + "'"); } sb.append(")"); insPers = sb.toString(); String updPers; sb = new StringBuilder(); sb.append("update unit set privacy=?,groupid=?,sex=?,sourcetext=?," + "privatetext=?,userrefn=?,Modified=now()"); if (userid != null) { sb.append(",modifiedby = '" + userid + "' where pid = ?"); } else { sb.append(" where pid = ?"); } updPers = sb.toString(); sb = new StringBuilder(); String updSql; sb.append("update unitnotice set "); sb.append("surety=?,Privacy=?,NoticeType=?,Description=?,"); sb.append("DatePrefix=?,FromDate=?,ToDate=?,Place=?,"); sb.append("Village=?,Farm=?,Croft=?,Address=?,"); sb.append("PostalCode=?,PostOffice=?,State=?,Country=?,Email=?,"); sb.append("NoteText=?,MediaFilename=?,MediaTitle=?,Prefix=?,"); sb.append("Surname=?,Givenname=?,Patronym=?,PostFix=?,"); sb.append("SourceText=?,PrivateText=?,RefNames=?,RefPlaces=?,Modified=now()"); if (userid != null) { sb.append(",modifiedby = '" + userid + "'"); } sb.append(" where pnid = ?"); updSql = sb.toString(); sb = new StringBuilder(); String insSql; sb.append("insert into unitnotice ("); sb.append("surety,Privacy,NoticeType,Description,"); sb.append("DatePrefix,FromDate,ToDate,Place,"); sb.append("Village,Farm,Croft,Address,"); sb.append("PostalCode,PostOffice,State,Country,Email,"); sb.append("NoteText,MediaFilename,MediaTitle,Prefix,"); sb.append("Surname,Givenname,Patronym,PostFix,"); sb.append("SourceText,PrivateText,RefNames,Refplaces,pnid,pid,tag"); if (userid != null) { sb.append(",createdby"); } sb.append(") values ("); sb.append("?,?,?,?,?,?,?,?," + "?,?,?,?,?,?,?,?," + "?,?,?,?,?,?,?,?,"); sb.append("?,?,?,?,?,?,?,?"); if (userid != null) { sb.append(",'" + userid + "'"); } sb.append(")"); insSql = sb.toString(); sb = new StringBuilder(); String updLangSql; sb.append("update unitlanguage set "); sb.append("NoticeType=?,Description=?," + "Place=?,"); sb.append("NoteText=?,MediaTitle=?,Modified=now() "); if (userid != null) { sb.append(",modifiedby = '" + userid + "'"); } sb.append("where pnid=? and langCode = ?"); updLangSql = sb.toString(); sb = new StringBuilder(); String insLangSql; sb.append("insert into unitlanguage (pnid,pid,tag,langcode,"); sb.append("NoticeType,Description,Place,"); sb.append("NoteText,MediaTitle"); if (userid != null) { sb.append(",createdby"); } sb.append(") values (?,?,?,?,?,?,?,?,?"); if (userid != null) { sb.append(",'" + userid + "'"); } sb.append(")"); insLangSql = sb.toString(); String delOneLangSql = "delete from unitlanguage where pnid = ? and langcode = ? "; String updRowSql = "update unitnotice set noticerow = ? where pnid = ? "; String delSql = "delete from unitnotice where pnid = ? "; String delAllLangSql = "delete from Unitlanguage where pnid = ? "; SukuData res = new SukuData(); UnitNotice[] nn = req.persLong.getNotices(); if (nn != null) { String prevName = ""; String prevOccu = ""; for (int i = 0; i < nn.length; i++) { if (nn[i].getTag().equals("NAME")) { String thisName = Utils.nv(nn[i].getGivenname()) + "/" + Utils.nv(nn[i].getPatronym()) + "/" + Utils.nv(nn[i].getPrefix()) + "/" + Utils.nv(nn[i].getSurname()) + "/" + Utils.nv(nn[i].getPostfix()); if (thisName.equals(prevName) && !prevName.equals("")) { if (nn[i].isToBeDeleted() == false) { String e = Resurses.getString("IDENTICAL_NAMES_ERROR") + " [" + req.persLong.getPid() + "] idx [" + i + "] = " + thisName; logger.warning(e); if (req.persLong.getPid() > 0) { res.resu = e; return res; } } } prevName = thisName; } else if (nn[i].getTag().equals("OCCU")) { String thisOccu = Utils.nv(nn[i].getDescription()); if (thisOccu.equals(prevOccu) && !prevOccu.equals("")) { if (nn[i].isToBeDeleted() == false) { String e = Resurses.getString("IDENTICAL_OCCU_ERROR") + " [" + req.persLong.getPid() + "] idx [" + i + "] = '" + thisOccu + "'"; logger.warning(e); if (req.persLong.getPid() > 0) { res.resu = e; return res; } } } prevOccu = thisOccu; } } } int pid = 0; try { con.setAutoCommit(false); Statement stm; PreparedStatement pst; if (req.persLong.getPid() > 0) { res.resultPid = req.persLong.getPid(); pid = req.persLong.getPid(); if (req.persLong.isMainModified()) { if (req.persLong.getModified() == null) { pst = con.prepareStatement(updPers + " and modified is null "); } else { pst = con.prepareStatement(updPers + " and modified = ?"); } pst.setString(1, req.persLong.getPrivacy()); pst.setString(2, req.persLong.getGroupId()); pst.setString(3, req.persLong.getSex()); pst.setString(4, req.persLong.getSource()); pst.setString(5, req.persLong.getPrivateText()); pst.setString(6, req.persLong.getRefn()); pst.setInt(7, req.persLong.getPid()); if (req.persLong.getModified() != null) { pst.setTimestamp(8, req.persLong.getModified()); } int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("Person update for pid " + pid + " failed [" + lukuri + "] (Should be 1)"); throw new SQLException("TRANSACTION_ERROR_1"); } String apara = null; String bpara = null; String cpara = null; String dpara = null; if (req.persLong.getSex().equals("M")) { apara = "FATH"; bpara = "MOTH"; cpara = "HUSB"; dpara = "WIFE"; } else if (req.persLong.getSex().equals("F")) { bpara = "FATH"; apara = "MOTH"; dpara = "HUSB"; cpara = "WIFE"; } if (apara != null) { String sqlParent = "update relation as b set tag=? " + "where b.rid in (select a.rid from relation as a " + "where a.pid = ? and a.pid <> b.rid and a.tag='CHIL') " + "and tag=?"; PreparedStatement ppare = con.prepareStatement(sqlParent); ppare.setString(1, apara); ppare.setInt(2, req.persLong.getPid()); ppare.setString(3, bpara); int resup = ppare.executeUpdate(); logger.fine("updated count for person parent= " + resup); String sqlSpouse = "update relation as b set tag=? " + "where b.rid in (select a.rid " + "from relation as a where a.pid = ? and a.pid <> b.pid " + "and a.tag in ('HUSB','WIFE')) and tag=?"; ppare = con.prepareStatement(sqlSpouse); ppare.setString(1, cpara); ppare.setInt(2, req.persLong.getPid()); ppare.setString(3, dpara); resup = ppare.executeUpdate(); logger.fine("updated count for person spouse= " + resup); } } } else { stm = con.createStatement(); ResultSet rs = stm.executeQuery("select nextval('unitseq')"); if (rs.next()) { pid = rs.getInt(1); res.resultPid = pid; } else { throw new SQLException("Sequence unitseq error"); } rs.close(); pst = con.prepareStatement(insPers); pst.setInt(1, pid); pst.setString(2, req.persLong.getTag()); pst.setString(3, req.persLong.getPrivacy()); pst.setString(4, req.persLong.getGroupId()); pst.setString(5, req.persLong.getSex()); pst.setString(6, req.persLong.getSource()); pst.setString(7, req.persLong.getPrivateText()); pst.setString(8, req.persLong.getRefn()); int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("Person created for pid " + pid + " gave result " + lukuri); } } PreparedStatement pstDel = con.prepareStatement(delSql); PreparedStatement pstDelLang = con.prepareStatement(delAllLangSql); PreparedStatement pstUpdRow = con.prepareStatement(updRowSql); if (nn != null) { for (int i = 0; i < nn.length; i++) { UnitNotice n = nn[i]; int pnid = 0; if (n.isToBeDeleted()) { pstDelLang.setInt(1, n.getPnid()); int landelcnt = pstDelLang.executeUpdate(); pstDel.setInt(1, n.getPnid()); int delcnt = pstDel.executeUpdate(); if (delcnt != 1) { logger.warning("Person notice [" + n.getTag() + "]delete for pid " + pid + " failed [" + delcnt + "] (Should be 1)"); throw new SQLException("TRANSACTION_ERROR_2"); } String text = "Poistettiin " + delcnt + " riviä [" + landelcnt + "] kieliversiota pid = " + n.getPid() + " tag=" + n.getTag(); logger.fine(text); } else if (n.getPnid() == 0 || n.isToBeUpdated()) { if (n.getPnid() == 0) { stm = con.createStatement(); ResultSet rs = stm.executeQuery("select nextval('unitnoticeseq')"); if (rs.next()) { pnid = rs.getInt(1); } else { throw new SQLException("Sequence unitnoticeseq error"); } rs.close(); pst = con.prepareStatement(insSql); } else { if (n.getModified() == null) { pst = con.prepareStatement(updSql + " and modified is null "); } else { pst = con.prepareStatement(updSql + " and modified = ?"); } pnid = n.getPnid(); } if (n.isToBeUpdated() || n.getPnid() == 0) { pst.setInt(1, n.getSurety()); pst.setString(2, n.getPrivacy()); pst.setString(3, n.getNoticeType()); pst.setString(4, n.getDescription()); pst.setString(5, n.getDatePrefix()); pst.setString(6, n.getFromDate()); pst.setString(7, n.getToDate()); pst.setString(8, n.getPlace()); pst.setString(9, n.getVillage()); pst.setString(10, n.getFarm()); pst.setString(11, n.getCroft()); pst.setString(12, n.getAddress()); pst.setString(13, n.getPostalCode()); pst.setString(14, n.getPostOffice()); pst.setString(15, n.getState()); pst.setString(16, n.getCountry()); pst.setString(17, n.getEmail()); pst.setString(18, n.getNoteText()); pst.setString(19, n.getMediaFilename()); pst.setString(20, n.getMediaTitle()); pst.setString(21, n.getPrefix()); pst.setString(22, n.getSurname()); pst.setString(23, n.getGivenname()); pst.setString(24, n.getPatronym()); pst.setString(25, n.getPostfix()); pst.setString(26, n.getSource()); pst.setString(27, n.getPrivateText()); if (n.getRefNames() == null) { pst.setNull(28, Types.ARRAY); } else { Array xx = con.createArrayOf("varchar", n.getRefNames()); pst.setArray(28, xx); } if (n.getRefPlaces() == null) { pst.setNull(29, Types.ARRAY); } else { Array xx = con.createArrayOf("varchar", n.getRefPlaces()); pst.setArray(29, xx); } } if (n.getPnid() > 0) { pst.setInt(30, n.getPnid()); if (n.getModified() != null) { pst.setTimestamp(31, n.getModified()); } int luku = pst.executeUpdate(); if (luku != 1) { logger.warning("Person notice [" + n.getTag() + "] update for pid " + pid + " failed [" + luku + "] (Should be 1)"); throw new SQLException("TRANSACTION_ERROR_3"); } logger.fine("Päivitettiin " + luku + " tietuetta pnid=[" + n.getPnid() + "]"); } else { pst.setInt(30, pnid); pst.setInt(31, pid); pst.setString(32, n.getTag()); int luku = pst.executeUpdate(); logger.fine("Luotiin " + luku + " tietue pnid=[" + pnid + "]"); } if (n.getMediaData() == null) { String sql = "update unitnotice set mediadata = null where pnid = ?"; pst = con.prepareStatement(sql); pst.setInt(1, pnid); int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("media deleted for pnid " + n.getPnid() + " gave result " + lukuri); } } else { String UPDATE_IMAGE_DATA = "update UnitNotice set MediaData = ?," + "mediaWidth = ?,mediaheight = ? where PNID = ? "; PreparedStatement ps = this.con.prepareStatement(UPDATE_IMAGE_DATA); ps.setBytes(1, n.getMediaData()); Dimension d = n.getMediaSize(); ps.setInt(2, d.width); ps.setInt(3, d.height); ps.setInt(4, pnid); ps.executeUpdate(); } } if (n.getLanguages() != null) { for (int l = 0; l < n.getLanguages().length; l++) { UnitLanguage ll = n.getLanguages()[l]; if (ll.isToBeDeleted()) { if (ll.getPnid() > 0) { pst = con.prepareStatement(delOneLangSql); pst.setInt(1, ll.getPnid()); pst.setString(2, ll.getLangCode()); int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("language deleted for pnid " + n.getPnid() + " [" + ll.getLangCode() + "] gave result " + lukuri); } } } if (ll.isToBeUpdated()) { if (ll.getPnid() == 0) { pst = con.prepareStatement(insLangSql); pst.setInt(1, n.getPnid()); pst.setInt(2, pid); pst.setString(3, n.getTag()); pst.setString(4, ll.getLangCode()); pst.setString(5, ll.getNoticeType()); pst.setString(6, ll.getDescription()); pst.setString(7, ll.getPlace()); pst.setString(8, ll.getNoteText()); pst.setString(9, ll.getMediaTitle()); int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("language added for pnid " + n.getPnid() + " [" + ll.getLangCode() + "] gave result " + lukuri); } } else { pst = con.prepareStatement(updLangSql); pst.setString(1, ll.getNoticeType()); pst.setString(2, ll.getDescription()); pst.setString(3, ll.getPlace()); pst.setString(4, ll.getNoteText()); pst.setString(5, ll.getMediaTitle()); pst.setInt(6, ll.getPnid()); pst.setString(7, ll.getLangCode()); int lukuri = pst.executeUpdate(); if (lukuri != 1) { logger.warning("language for pnid " + ll.getPnid() + " [" + ll.getLangCode() + "] gave result " + lukuri); } pst.close(); } } } } if (n.getPnid() > 0) { pnid = n.getPnid(); } pstUpdRow.setInt(1, i + 1); pstUpdRow.setInt(2, pnid); pstUpdRow.executeUpdate(); } } if (req.relations != null) { if (req.persLong.getPid() == 0) { req.persLong.setPid(pid); for (int i = 0; i < req.relations.length; i++) { Relation r = req.relations[i]; if (r.getPid() == 0) { r.setPid(pid); } } } updateRelations(userid, req); } con.commit(); } catch (Exception e) { try { con.rollback(); } catch (SQLException e1) { logger.log(Level.WARNING, "Person update rollback failed", e1); } logger.log(Level.WARNING, "person update rolled back for [" + pid + "]", e); res.resu = e.getMessage(); return res; } finally { try { con.setAutoCommit(true); } catch (SQLException e) { logger.log(Level.WARNING, "set autocommit failed", e); } } return res; } | 19,052 |
0 | public AudioInputStream getAudioInputStream(URL url) throws UnsupportedAudioFileException, IOException { InputStream urlStream = url.openStream(); AudioFileFormat fileFormat = null; try { fileFormat = getFMT(urlStream, false); } finally { if (fileFormat == null) { urlStream.close(); } } return new AudioInputStream(urlStream, fileFormat.getFormat(), fileFormat.getFrameLength()); } | public final Matrix3D<E> read(final URL url) throws IOException { if (url == null) { throw new IllegalArgumentException("url must not be null"); } InputStream inputStream = null; try { inputStream = url.openStream(); return read(inputStream); } catch (IOException e) { throw e; } finally { MatrixIOUtils.closeQuietly(inputStream); } } | 19,053 |
0 | public static Node carregaModeloJME(String caminho) { try { URL urlModelo = ModelUtils.class.getClassLoader().getResource(caminho); BufferedInputStream leitorBinario = new BufferedInputStream(urlModelo.openStream()); Node modelo = (Node) BinaryImporter.getInstance().load(leitorBinario); modelo.setModelBound(new BoundingBox()); modelo.updateModelBound(); return modelo; } catch (IOException e) { e.printStackTrace(); } return null; } | public static Collection<SearchKeyResult> searchKey(String iText, String iKeyServer) throws Exception { Vector<SearchKeyResult> outVec = new Vector<SearchKeyResult>(); String uri = iKeyServer + "/pks/lookup?search=" + URLEncoder.encode(iText, "UTF-8"); URL url = new URL(uri); BufferedReader input = new BufferedReader(new InputStreamReader(url.openStream())); Pattern regex = Pattern.compile("pub.*?<a\\s+href\\s*=\"(.*?)\".*?>\\s*(\\w+)\\s*</a>.*?(\\d+-\\d+-\\d+).*?<a\\s+href\\s*=\".*?\".*?>\\s*(.+?)\\s*</a>", Pattern.CANON_EQ); String line; while ((line = input.readLine()) != null) { Matcher regexMatcher = regex.matcher(line); while (regexMatcher.find()) { String id = regexMatcher.group(2); String downUrl = iKeyServer + regexMatcher.group(1); String downDate = regexMatcher.group(3); String name = HTMLDecoder.decodeHTML(regexMatcher.group(4)); outVec.add(new SearchKeyResult(id, name, downDate, downUrl)); } } input.close(); return outVec; } | 19,054 |
0 | public static void copyFile5(File srcFile, File destFile) throws IOException { InputStream in = new FileInputStream(srcFile); OutputStream out = new FileOutputStream(destFile); IOUtils.copyLarge(in, out); in.close(); out.close(); } | public void add(AddInterceptorChain chain, Entry entry, LDAPConstraints constraints) throws LDAPException { Connection con = (Connection) chain.getRequest().get(JdbcInsert.MYVD_DB_CON + "LDAPBaseServer"); if (con == null) { throw new LDAPException("Operations Error", LDAPException.OPERATIONS_ERROR, "No Database Connection"); } try { con.setAutoCommit(false); HashMap<String, String> db2ldap = (HashMap<String, String>) chain.getRequest().get(JdbcInsert.MYVD_DB_DB2LDAP + "LDAPBaseServer"); PreparedStatement ps = con.prepareStatement("INSERT INTO USERS (id,firstname,lastname,username) VALUES (?,?,?,?)"); ps.setInt(1, 5); ps.setString(2, entry.getEntry().getAttribute(db2ldap.get("firstname")).getStringValue()); ps.setString(3, entry.getEntry().getAttribute(db2ldap.get("lastname")).getStringValue()); ps.setString(4, entry.getEntry().getAttribute(db2ldap.get("username")).getStringValue()); ps.executeUpdate(); ps.close(); ps = con.prepareStatement("SELECT id FROM LOCATIONS WHERE name=?"); PreparedStatement inst = con.prepareStatement("INSERT INTO LOCATIONMAP (person,location) VALUES (?,?)"); LDAPAttribute l = entry.getEntry().getAttribute(db2ldap.get("name")); if (l == null) { con.rollback(); throw new LDAPException("Location is required", LDAPException.OBJECT_CLASS_VIOLATION, "Location is required"); } String[] vals = l.getStringValueArray(); for (int i = 0; i < vals.length; i++) { ps.setString(1, vals[i]); ResultSet rs = ps.executeQuery(); if (!rs.next()) { con.rollback(); throw new LDAPException("Location " + vals[i] + " does not exist", LDAPException.OBJECT_CLASS_VIOLATION, "Location " + vals[i] + " does not exist"); } inst.setInt(1, 5); inst.setInt(2, rs.getInt("id")); inst.executeUpdate(); } ps.close(); inst.close(); con.commit(); } catch (SQLException e) { try { con.rollback(); } catch (SQLException e1) { throw new LDAPException("Could not add entry or rollback transaction", LDAPException.OPERATIONS_ERROR, e.toString(), e); } throw new LDAPException("Could not add entry", LDAPException.OPERATIONS_ERROR, e.toString(), e); } } | 19,055 |
1 | private boolean copy_to_file_io(File src, File dst) throws IOException { InputStream is = null; OutputStream os = null; try { is = new FileInputStream(src); is = new BufferedInputStream(is); os = new FileOutputStream(dst); os = new BufferedOutputStream(os); byte buffer[] = new byte[1024 * 64]; int read; while ((read = is.read(buffer)) > 0) { os.write(buffer, 0, read); } return true; } finally { try { if (is != null) is.close(); } catch (IOException e) { Debug.debug(e); } try { if (os != null) os.close(); } catch (IOException e) { Debug.debug(e); } } } | @Override public void sendContent(OutputStream out, Range range, Map<String, String> params, String contentType) throws IOException, NotAuthorizedException, BadRequestException, NotFoundException { try { resolveFileAttachment(); } catch (NoFileByTheIdException e) { throw new NotFoundException(e.getLocalizedMessage()); } DefinableEntity owningEntity = fa.getOwner().getEntity(); InputStream in = getFileModule().readFile(owningEntity.getParentBinder(), owningEntity, fa); try { if (range != null) { if (logger.isDebugEnabled()) logger.debug("sendContent: ranged content: " + toString(fa)); PartialGetHelper.writeRange(in, range, out); } else { if (logger.isDebugEnabled()) logger.debug("sendContent: send whole file " + toString(fa)); IOUtils.copy(in, out); } out.flush(); } catch (ReadingException e) { throw new IOException(e); } catch (WritingException e) { throw new IOException(e); } finally { IOUtils.closeQuietly(in); } } | 19,056 |
1 | public static void copyFile(File src, File dest) throws IOException, IllegalArgumentException { if (src.isDirectory()) throw new IllegalArgumentException("Source file is a directory"); if (dest.isDirectory()) throw new IllegalArgumentException("Destination file is a directory"); int bufferSize = 4 * 1024; InputStream in = new FileInputStream(src); OutputStream out = new FileOutputStream(dest); byte[] buffer = new byte[bufferSize]; int bytesRead; while ((bytesRead = in.read(buffer)) >= 0) out.write(buffer, 0, bytesRead); out.close(); in.close(); } | public static void copyFile(File in, File out) throws IOException { FileChannel inChannel = new FileInputStream(in).getChannel(); FileChannel outChannel = new FileOutputStream(out).getChannel(); try { inChannel.transferTo(0, inChannel.size(), outChannel); } catch (IOException e) { throw e; } finally { if (inChannel != null) inChannel.close(); if (outChannel != null) outChannel.close(); } } | 19,057 |
0 | public static GenericDocumentTransformer<? extends GenericDocument> getTranformer(URL url) throws IOException { setDefaultImplementation(); if ("text/xml".equals(url.openConnection().getContentType()) || "application/xml".equals(url.openConnection().getContentType())) { return null; } else if ("text/html".equals(url.openConnection().getContentType())) { return null; } return null; } | @SuppressWarnings("unchecked") private int syncCustomers() throws RemoteException, BasicException { dlintegration.syncCustomersBefore(); ArrayList<String> notToSync = new ArrayList<String>(); int step = 0; User[] remoteUsers; int cpt = 0; do { remoteUsers = externalsales.getUsersBySteps(step); step++; if (remoteUsers == null) { throw new BasicException(AppLocal.getIntString("message.returnnull") + " > Customers null"); } if (remoteUsers.length > 0) { String perms; for (User remoteUser : remoteUsers) { if (notToSync.contains(remoteUser.getLogin())) continue; cpt++; String name = externalsales.encodeString((remoteUser.getFirstname().trim() + " " + remoteUser.getLastname()).trim()); String firstname = externalsales.encodeString(remoteUser.getFirstname()); String lastname = externalsales.encodeString(remoteUser.getLastname()); String description = externalsales.encodeString(remoteUser.getDescription()); String address = externalsales.encodeString(remoteUser.getAddress()); String address2 = externalsales.encodeString(remoteUser.getAddress2()); String city = externalsales.encodeString(remoteUser.getCity()); String country = externalsales.encodeString(remoteUser.getCountry()); String phone = externalsales.encodeString(remoteUser.getPhone()); String mobile = externalsales.encodeString(remoteUser.getMobile()); String zipcode = externalsales.encodeString(remoteUser.getZipcode()); CustomerSync copyCustomer = new CustomerSync(remoteUser.getId()); if (firstname == null || firstname.equals("")) firstname = " "; copyCustomer.setFirstname(firstname.toUpperCase()); if (lastname == null || lastname.equals("")) lastname = " "; copyCustomer.setLastname(lastname.toUpperCase()); copyCustomer.setTaxid(remoteUser.getLogin()); copyCustomer.setSearchkey(remoteUser.getLogin() + name.toUpperCase()); if (name == null || name.equals("")) name = " "; copyCustomer.setName(name.toUpperCase()); if (description == null || description.equals("")) description = " "; copyCustomer.setNotes(description); copyCustomer.setEmail(remoteUser.getEmail()); if (address == null || address.equals("")) address = " "; copyCustomer.setAddress(address); if (address2 == null || address2.equals("")) address2 = " "; copyCustomer.setAddress2(address2); if (city == null || city.equals("")) city = "Brussels"; copyCustomer.setCity(city); if (country == null || country.equals("")) country = "Belgium"; copyCustomer.setCountry(country); copyCustomer.setMaxdebt(10000.0); if (phone == null || phone.equals("")) phone = " "; copyCustomer.setPhone(phone); if (mobile == null || mobile.equals("")) mobile = " "; copyCustomer.setPhone2(mobile); if (zipcode == null || zipcode.equals("")) zipcode = " "; copyCustomer.setPostal(zipcode); if (TicketInfo.isWS() && TicketInfo.getPayID() == 2 && remoteUser.getEmail().contains("@DONOTSENDME")) { notToSync.add(copyCustomer.getTaxid()); continue; } dlintegration.syncCustomer(copyCustomer); notToSync.add(copyCustomer.getTaxid()); } } } while (remoteUsers.length > 0); List<CustomerSync> localList = dlintegration.getCustomers(); SimpleDateFormat df = new SimpleDateFormat("yyyy-MM-dd HH:mm:ss"); for (CustomerSync localCustomer : localList) { Date now = new Date(); if (notToSync.contains(localCustomer.getTaxid())) { continue; } cpt++; User userAdd = new User(); userAdd.setLogin(localCustomer.getTaxid()); userAdd.setId(localCustomer.getTaxid()); userAdd.setFirstname(" "); String tmpName = localCustomer.getName().trim(); tmpName = tmpName.replace("'", ""); while (tmpName.charAt(0) == ' ') { tmpName = tmpName.substring(1); } userAdd.setLastname(tmpName); char[] pw = new char[8]; int c = 'A'; int r1 = 0; for (int i = 0; i < 8; i++) { r1 = (int) (Math.random() * 3); switch(r1) { case 0: c = '0' + (int) (Math.random() * 10); break; case 1: c = 'a' + (int) (Math.random() * 26); break; case 2: c = 'A' + (int) (Math.random() * 26); break; } pw[i] = (char) c; } String clave = new String(pw); byte[] password = { 00 }; try { MessageDigest md5 = MessageDigest.getInstance("MD5"); md5.update(clave.getBytes()); password = md5.digest(); userAdd.setPassword(password.toString()); } catch (NoSuchAlgorithmException ex) { Logger.getLogger(UsersSync.class.getName()).log(Level.SEVERE, null, ex); userAdd.setPassword(clave); } userAdd.setTitle("M"); if (localCustomer.getEmail() == null || localCustomer.getEmail().trim().equals("") || localCustomer.getEmail().indexOf('@') <= 0) userAdd.setEmail(localCustomer.getTaxid() + defaultEmail); else userAdd.setEmail(localCustomer.getEmail()); userAdd.setDescription(localCustomer.getNotes() + ""); userAdd.setAddress(localCustomer.getAddress() + ""); userAdd.setAddress2(localCustomer.getAddress2() + ""); userAdd.setState_region(localCustomer.getRegion() + ""); userAdd.setCity(localCustomer.getCity() + ""); userAdd.setCountry(localCustomer.getCountry() + ""); userAdd.setZipcode(localCustomer.getPostal() + ""); userAdd.setPhone(localCustomer.getPhone() + ""); userAdd.setMobile(localCustomer.getPhone2() + ""); userAdd.setFax(" "); try { userAdd.setCdate(df.format(localCustomer.getCurdate())); } catch (NullPointerException nu) { userAdd.setCdate(df.format(now)); } userAdd.setPerms("shopper"); userAdd.setBank_account_nr(""); userAdd.setBank_account_holder(""); userAdd.setBank_account_type(""); userAdd.setBank_iban(""); userAdd.setBank_name(""); userAdd.setBank_sort_code(""); userAdd.setMdate(df.format(now)); userAdd.setShopper_group_id("1"); externalsales.addUser(userAdd); } return cpt; } | 19,058 |
0 | private ResponseStatus performHandshake(String url) throws IOException { HttpURLConnection connection = Caller.getInstance().openConnection(url); InputStream is = connection.getInputStream(); BufferedReader r = new BufferedReader(new InputStreamReader(is)); String status = r.readLine(); int statusCode = ResponseStatus.codeForStatus(status); ResponseStatus responseStatus; if (statusCode == ResponseStatus.OK) { this.sessionId = r.readLine(); this.nowPlayingUrl = r.readLine(); this.submissionUrl = r.readLine(); responseStatus = new ResponseStatus(statusCode); } else if (statusCode == ResponseStatus.FAILED) { responseStatus = new ResponseStatus(statusCode, status.substring(status.indexOf(' ') + 1)); } else { return new ResponseStatus(statusCode); } r.close(); return responseStatus; } | @Override public void sendContent(OutputStream out, Range range, Map<String, String> params, String contentType) throws IOException, NotAuthorizedException, BadRequestException, NotFoundException { try { resolveFileAttachment(); } catch (NoFileByTheIdException e) { throw new NotFoundException(e.getLocalizedMessage()); } DefinableEntity owningEntity = fa.getOwner().getEntity(); InputStream in = getFileModule().readFile(owningEntity.getParentBinder(), owningEntity, fa); try { if (range != null) { if (logger.isDebugEnabled()) logger.debug("sendContent: ranged content: " + toString(fa)); PartialGetHelper.writeRange(in, range, out); } else { if (logger.isDebugEnabled()) logger.debug("sendContent: send whole file " + toString(fa)); IOUtils.copy(in, out); } out.flush(); } catch (ReadingException e) { throw new IOException(e); } catch (WritingException e) { throw new IOException(e); } finally { IOUtils.closeQuietly(in); } } | 19,059 |
0 | private static String scramble(String text) { try { MessageDigest md = MessageDigest.getInstance("SHA-1"); md.update(text.getBytes("UTF-8")); StringBuffer sb = new StringBuffer(); for (byte b : md.digest()) sb.append(Integer.toString(b & 0xFF, 16)); return sb.toString(); } catch (UnsupportedEncodingException e) { return null; } catch (NoSuchAlgorithmException e) { return null; } } | private boolean postLogin() { URL url = null; URLConnection urlConn = null; OutputStream out = null; int code = 0; boolean gotPhpsessid = false; try { url = new URL("http://" + m_host + "/forums/index.php?action=login2"); } catch (MalformedURLException e) { e.printStackTrace(); return false; } try { urlConn = url.openConnection(); ((HttpURLConnection) urlConn).setRequestMethod("POST"); ((HttpURLConnection) urlConn).setInstanceFollowRedirects(false); urlConn.setDoOutput(true); urlConn.setDoInput(true); urlConn.setRequestProperty("Host", m_host); urlConn.setRequestProperty("Accept", "*/*"); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); urlConn.setRequestProperty("Connection", "Keep-Alive"); urlConn.setRequestProperty("Cache-Control", "no-cache"); out = urlConn.getOutputStream(); out.write(new String("user=" + m_username + "&passwrd=" + m_password + "&cookielength=60").getBytes()); out.flush(); out.close(); do { readCookies(urlConn); m_referer = url.toString(); code = ((HttpURLConnection) urlConn).getResponseCode(); if (code == 301 || code == 302) { url = new URL(urlConn.getHeaderField("Location")); urlConn = url.openConnection(); ((HttpURLConnection) urlConn).setRequestMethod("GET"); ((HttpURLConnection) urlConn).setInstanceFollowRedirects(false); urlConn.setDoOutput(true); urlConn.setDoInput(true); urlConn.setRequestProperty("Host", m_host); urlConn.setRequestProperty("Accept", "*/*"); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); urlConn.setRequestProperty("Connection", "Keep-Alive"); urlConn.setRequestProperty("Cache-Control", "no-cache"); if (m_referer != null) urlConn.setRequestProperty("Referer", m_referer); if (m_cookies != null) urlConn.setRequestProperty("Cookie", m_cookies); continue; } if (code == 200) { String refreshHdr = urlConn.getHeaderField("Refresh"); Pattern p_phpsessid = Pattern.compile(".*?\\?PHPSESSID=(\\w+).*"); Matcher match_phpsessid = p_phpsessid.matcher(refreshHdr); if (match_phpsessid.matches()) { gotPhpsessid = true; } urlConn = null; continue; } String msg = ((HttpURLConnection) urlConn).getResponseMessage(); m_turnSummaryRef = String.valueOf(code) + ": " + msg; return false; } while (urlConn != null); } catch (Exception e) { e.printStackTrace(); return false; } if (!gotPhpsessid) { m_turnSummaryRef = "Error: PHPSESSID not found after login. "; return false; } if (m_cookies == null) { m_turnSummaryRef = "Error: cookies not found after login. "; return false; } try { Thread.sleep(m_loginDelayInSeconds * 1000); } catch (InterruptedException ie) { ie.printStackTrace(); } return true; } | 19,060 |
0 | public static String readURL(String urlStr, boolean debug) { if (debug) System.out.print(" trying: " + urlStr + "\n"); URL url = null; try { url = new URL(urlStr); } catch (java.net.MalformedURLException e) { System.out.print("test failed: using URL: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } HttpURLConnection huc = null; try { huc = (HttpURLConnection) url.openConnection(); } catch (IOException e) { System.out.print("test failed: using URL: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } String contentType = huc.getContentType(); if (contentType == null || contentType.indexOf("text/xml") < 0) { System.out.print("*** Warning *** Content-Type not set to text/xml"); System.out.print('\n'); System.out.print(" Content-type: "); System.out.print(contentType); System.out.print('\n'); } InputStream urlStream = null; try { urlStream = huc.getInputStream(); } catch (java.io.IOException e) { System.out.print("test failed: opening URL: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } BufferedReader in = new BufferedReader(new InputStreamReader(urlStream)); boolean xml = true; String href = null, inputLine = null; StringBuffer content = new StringBuffer(), stylesheet = null; Transformer transformer = null; try { inputLine = in.readLine(); } catch (java.io.IOException e) { System.out.print("test failed: reading first line of response: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } if (inputLine == null) { System.out.print("test failed: No input read from URL"); System.out.print('\n'); return null; } if (!inputLine.startsWith("<?xml ")) { xml = false; content.append(inputLine); } if (xml) { int offset = inputLine.indexOf('>'); if (offset + 2 < inputLine.length()) { inputLine = inputLine.substring(offset + 1); offset = inputLine.indexOf('<'); if (offset > 0) inputLine = inputLine.substring(offset); } else try { inputLine = in.readLine(); } catch (java.io.IOException e) { System.out.print("test failed: reading response: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } content.append(inputLine); } try { while ((inputLine = in.readLine()) != null) content.append(inputLine); } catch (java.io.IOException e) { System.out.print("test failed: reading response: "); System.out.print(e.getMessage()); System.out.print('\n'); return null; } String contentStr = content.toString(); if (transformer != null) { StreamSource streamXMLRecord = new StreamSource(new StringReader(contentStr)); StringWriter xmlRecordWriter = new StringWriter(); try { transformer.transform(streamXMLRecord, new StreamResult(xmlRecordWriter)); System.out.print(" successfully applied stylesheet '"); System.out.print(href); System.out.print("'"); System.out.print('\n'); } catch (javax.xml.transform.TransformerException e) { System.out.print("unable to apply stylesheet '"); System.out.print(href); System.out.print("'to response: "); System.out.print(e.getMessage()); System.out.print('\n'); e.printStackTrace(); } } return contentStr; } | public void writeOutput(String directory) throws IOException { File f = new File(directory); int i = 0; if (f.isDirectory()) { for (AppInventorScreen screen : screens.values()) { File screenFile = new File(getScreenFilePath(f.getAbsolutePath(), screen)); screenFile.getParentFile().mkdirs(); screenFile.createNewFile(); FileWriter out = new FileWriter(screenFile); String initial = files.get(i).toString(); Map<String, String> types = screen.getTypes(); String[] lines = initial.split("\n"); for (String key : types.keySet()) { if (!key.trim().equals(screen.getName().trim())) { String value = types.get(key); boolean varFound = false; boolean importFound = false; for (String line : lines) { if (line.matches("^\\s*(public|private)\\s+" + value + "\\s+" + key + "\\s*=.*;$")) varFound = true; if (line.matches("^\\s*(public|private)\\s+" + value + "\\s+" + key + "\\s*;$")) varFound = true; if (line.matches("^\\s*import\\s+.*" + value + "\\s*;$")) importFound = true; } if (!varFound) initial = initial.replaceFirst("(?s)(?<=\\{\n)", "\tprivate " + value + " " + key + ";\n"); if (!importFound) initial = initial.replaceFirst("(?=import)", "import com.google.devtools.simple.runtime.components.android." + value + ";\n"); } } out.write(initial); out.close(); i++; } File manifestFile = new File(getManifestFilePath(f.getAbsolutePath(), manifest)); manifestFile.getParentFile().mkdirs(); manifestFile.createNewFile(); FileWriter out = new FileWriter(manifestFile); out.write(manifest.toString()); out.close(); File projectFile = new File(getProjectFilePath(f.getAbsolutePath(), project)); projectFile.getParentFile().mkdirs(); projectFile.createNewFile(); out = new FileWriter(projectFile); out.write(project.toString()); out.close(); String[] copyResourceFilenames = { "proguard.cfg", "project.properties", "libSimpleAndroidRuntime.jar", "\\.classpath", "res/drawable/icon.png", "\\.settings/org.eclipse.jdt.core.prefs" }; for (String copyResourceFilename : copyResourceFilenames) { InputStream is = getClass().getResourceAsStream("/resources/" + copyResourceFilename.replace("\\.", "")); File outputFile = new File(f.getAbsoluteFile() + File.separator + copyResourceFilename.replace("\\.", ".")); outputFile.getParentFile().mkdirs(); OutputStream os = new FileOutputStream(outputFile); byte[] buf = new byte[1024]; int readBytes; if (is == null) System.out.println("/resources/" + copyResourceFilename.replace("\\.", "")); if (os == null) System.out.println(f.getAbsolutePath() + File.separator + copyResourceFilename.replace("\\.", ".")); while ((readBytes = is.read(buf)) > 0) { os.write(buf, 0, readBytes); } } for (String assetName : assets) { InputStream is = new FileInputStream(new File(assetsDir.getAbsolutePath() + File.separator + assetName)); File outputFile = new File(f.getAbsoluteFile() + File.separator + assetName); outputFile.getParentFile().mkdirs(); OutputStream os = new FileOutputStream(outputFile); byte[] buf = new byte[1024]; int readBytes; while ((readBytes = is.read(buf)) > 0) { os.write(buf, 0, readBytes); } } File assetsOutput = new File(getAssetsFilePath(f.getAbsolutePath())); new File(assetsDir.getAbsoluteFile() + File.separator + "assets").renameTo(assetsOutput); } } | 19,061 |
0 | private String[] read(String path) throws Exception { final String[] names = { "index.txt", "", "index.html", "index.htm" }; String[] list = null; for (int i = 0; i < names.length; i++) { URL url = new URL(path + names[i]); try { BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); StringBuffer sb = new StringBuffer(); String s = null; while ((s = in.readLine()) != null) { s = s.trim(); if (s.length() > 0) { sb.append(s + "\n"); } } in.close(); if (sb.indexOf("<") != -1 && sb.indexOf(">") != -1) { List links = LinkExtractor.scan(url, sb.toString()); HashSet set = new HashSet(); int prefixLen = path.length(); for (Iterator it = links.iterator(); it.hasNext(); ) { String link = it.next().toString(); if (!link.startsWith(path)) { continue; } link = link.substring(prefixLen); int idx = link.indexOf("/"); int idxq = link.indexOf("?"); if (idx > 0 && (idxq == -1 || idx < idxq)) { set.add(link.substring(0, idx + 1)); } else { set.add(link); } } list = (String[]) set.toArray(new String[0]); } else { list = sb.toString().split("\n"); } return list; } catch (FileNotFoundException e) { e.printStackTrace(); continue; } } return new String[0]; } | public static String MD5(String text) throws NoSuchAlgorithmException, UnsupportedEncodingException { MessageDigest md; md = MessageDigest.getInstance("MD5"); byte[] md5hash = new byte[32]; md.update(text.getBytes("iso-8859-1"), 0, text.length()); md5hash = md.digest(); return convertToHex(md5hash); } | 19,062 |
0 | protected void doRestoreOrganizeRelation() throws Exception { Connection con = null; PreparedStatement ps = null; ResultSet result = null; String strDelQuery = "DELETE FROM " + Common.ORGANIZE_RELATION_TABLE; String strSelQuery = "SELECT organize_id,organize_type_id,child_id,child_type_id,remark " + "FROM " + Common.ORGANIZE_RELATION_B_TABLE + " " + "WHERE version_no = ?"; String strInsQuery = "INSERT INTO " + Common.ORGANIZE_RELATION_TABLE + " " + "(organize_id,organize_type,child_id,child_type,remark) " + "VALUES (?,?,?,?,?)"; DBOperation dbo = factory.createDBOperation(POOL_NAME); try { try { con = dbo.getConnection(); con.setAutoCommit(false); ps = con.prepareStatement(strDelQuery); ps.executeUpdate(); ps = con.prepareStatement(strSelQuery); ps.setInt(1, this.versionNO); result = ps.executeQuery(); ps = con.prepareStatement(strInsQuery); while (result.next()) { ps.setString(1, result.getString("organize_id")); ps.setString(2, result.getString("organize_type_id")); ps.setString(3, result.getString("child_id")); ps.setString(4, result.getString("child_type_id")); ps.setString(5, result.getString("remark")); int resultCount = ps.executeUpdate(); if (resultCount != 1) { con.rollback(); throw new CesSystemException("Organize_backup.doRestoreOrganizeRelation(): ERROR Inserting data " + "in T_SYS_ORGANIZE_RELATION INSERT !! resultCount = " + resultCount); } } con.commit(); } catch (SQLException se) { con.rollback(); throw new CesSystemException("Organize_backup.doRestoreOrganizeRelation(): SQLException: " + se); } finally { con.setAutoCommit(true); close(dbo, ps, result); } } catch (SQLException se) { throw new CesSystemException("Organize_backup.doRestoreOrganizeRelation(): SQLException while committing or rollback"); } } | private static void copySmallFile(File sourceFile, File targetFile) throws BusinessException { LOG.debug("Copying SMALL file '" + sourceFile.getAbsolutePath() + "' to '" + targetFile.getAbsolutePath() + "'."); FileChannel inChannel = null; FileChannel outChannel = null; try { inChannel = new FileInputStream(sourceFile).getChannel(); outChannel = new FileOutputStream(targetFile).getChannel(); inChannel.transferTo(0, inChannel.size(), outChannel); } catch (IOException e) { throw new BusinessException("Could not copy file from '" + sourceFile.getAbsolutePath() + "' to '" + targetFile.getAbsolutePath() + "'!", e); } finally { try { if (inChannel != null) inChannel.close(); } catch (IOException e) { LOG.error("Could not close input stream!", e); } try { if (outChannel != null) outChannel.close(); } catch (IOException e) { LOG.error("Could not close output stream!", e); } } } | 19,063 |
0 | public static String hash(final String s) { if (s == null || s.length() == 0) return null; try { final MessageDigest hashEngine = MessageDigest.getInstance("SHA-1"); hashEngine.update(s.getBytes("iso-8859-1"), 0, s.length()); return convertToHex(hashEngine.digest()); } catch (final Exception e) { return null; } } | void copyFile(String sInput, String sOutput) throws IOException { File inputFile = new File(sInput); File outputFile = new File(sOutput); FileReader in = new FileReader(inputFile); FileWriter out = new FileWriter(outputFile); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); } | 19,064 |
0 | private static void copyFile(String src, String dest) throws IOException { File destFile = new File(dest); if (destFile.exists()) { destFile.delete(); } FileChannel srcChannel = new FileInputStream(src).getChannel(); FileChannel dstChannel = new FileOutputStream(dest).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } | private Bitmap fetchImage(String urlstr) throws Exception { URL url; url = new URL(urlstr); HttpURLConnection c = (HttpURLConnection) url.openConnection(); c.setDoInput(true); c.setRequestProperty("User-Agent", "Agent"); c.connect(); InputStream is = c.getInputStream(); Bitmap img; img = BitmapFactory.decodeStream(is); return img; } | 19,065 |
0 | public static String getSHADigest(String input) { if (input == null) return null; MessageDigest sha = null; try { sha = MessageDigest.getInstance("SHA-1"); } catch (java.security.NoSuchAlgorithmException nsae) { throw new RuntimeException(nsae); } if (sha == null) throw new RuntimeException("No message digest"); sha.update(input.getBytes()); byte[] data = sha.digest(); StringBuffer buf = new StringBuffer(data.length * 2); for (int i = 0; i < data.length; i++) { int value = data[i] & 0xff; buf.append(hexDigit(value >> 4)); buf.append(hexDigit(value)); } return buf.toString(); } | private void executeScript(SQLiteDatabase sqlDatabase, InputStream input) { StringWriter writer = new StringWriter(); try { IOUtils.copy(input, writer); } catch (IOException e) { throw new ComixException("Could not read the database script", e); } String multipleSql = writer.toString(); String[] split = multipleSql.split("-- SCRIPT_SPLIT --"); for (String sql : split) { if (!sql.trim().equals("")) { sqlDatabase.execSQL(sql); } } } | 19,066 |
0 | @Test public void testValidLogConfiguration() throws IOException, IllegalArgumentException { URL url = ClassLoader.getSystemResource(PROPERTIES_FILE_NAME); if (url == null) { throw new IOException("Could not find configuration file " + PROPERTIES_FILE_NAME + " in class path"); } Properties properties = new Properties(); properties.load(url.openStream()); LogLevel logLevel = LogLevel.valueOf((String) properties.get(PROPERTY_KEY_LOGLEVEL)); if (logLevel == null) { throw new IOException("Invalid configuration file " + PROPERTIES_FILE_NAME + ": no entry for " + PROPERTY_KEY_LOGLEVEL); } String loggerIdentifier = "Test logger"; Logger logger = LoggerFactory.getLogger(loggerIdentifier); assertEquals("Logger has wrong log level", logLevel, logger.getLogLevel()); } | private static HttpURLConnection getConnection(URL url) throws IOException { HttpURLConnection conn = (HttpURLConnection) url.openConnection(); conn.setRequestMethod("GET"); conn.setDoInput(true); conn.setDoOutput(true); conn.setRequestProperty("Accept", "application/zip;text/html"); return conn; } | 19,067 |
1 | public void echo(HttpRequest request, HttpResponse response) throws IOException { InputStream in = request.getInputStream(); if ("gzip".equals(request.getField("Content-Encoding"))) { in = new GZIPInputStream(in); } IOUtils.copy(in, response.getOutputStream()); } | private byte[] getMergedContent(List names, ServletContext servletContext) throws IOException { ByteArrayOutputStream baos = new ByteArrayOutputStream(); for (Iterator iterator = names.iterator(); iterator.hasNext(); ) { String path = (String) iterator.next(); if (!path.startsWith("/")) path = "/" + path; URL url = servletContext.getResource(path); if (url == null) url = getClass().getResource(path); if (url == null) throw new IOException("The resources '" + path + "' could not be found neither in the webapp folder nor in a jar"); log.debug("Merging content of group : " + getName()); InputStream inputStream = url.openStream(); InputStreamReader r = new InputStreamReader(inputStream); IOUtils.copy(r, baos, "ASCII"); baos.write((byte) '\n'); inputStream.close(); } baos.close(); return baos.toByteArray(); } | 19,068 |
0 | private String getBytes(String in) throws NoSuchAlgorithmException { MessageDigest md5 = MessageDigest.getInstance("MD5"); md5.update(in.getBytes()); byte[] passWordBytes = md5.digest(); String s = "["; for (int i = 0; i < passWordBytes.length; i++) s += passWordBytes[i] + ", "; s = s.substring(0, s.length() - 2); s += "]"; return s; } | private Metadata readMetadataIndexFileFromNetwork(String mediaMetadataURI) throws IOException { Metadata tempMetadata = new Metadata(); URL url = new URL(mediaMetadataURI); BufferedReader input = new BufferedReader(new InputStreamReader(url.openStream())); String tempLine = null; while ((tempLine = input.readLine()) != null) { Property tempProperty = PropertyList.splitStringIntoKeyAndValue(tempLine); if (tempProperty != null) { tempMetadata.addIfNotNull(tempProperty.getKey(), tempProperty.getValue()); } } input.close(); return tempMetadata; } | 19,069 |
1 | public static String createStringFromHtml(MyUrl url) { try { BufferedReader reader = new BufferedReader(new InputStreamReader(url.getUrl().openStream(), "UTF-8")); String line; String xmlAsString = ""; while ((line = reader.readLine()) != null) { xmlAsString += line; } reader.close(); return xmlAsString; } catch (Exception e) { return null; } } | public static BufferedReader getUserInfoStream(String name) throws IOException { BufferedReader in; try { URL url = new URL("http://www.spoj.pl/users/" + name.toLowerCase() + "/"); in = new BufferedReader(new InputStreamReader(url.openStream())); } catch (MalformedURLException e) { in = null; throw e; } return in; } | 19,070 |
0 | @SuppressWarnings("finally") @Override public String read(EnumSensorType sensorType, Map<String, String> stateMap) { BufferedReader in = null; StringBuffer result = new StringBuffer(); try { URL url = new URL(getUrl()); in = new BufferedReader(new InputStreamReader(url.openStream())); String str; while ((str = in.readLine()) != null) { result.append(str); } } catch (ConnectException ce) { logger.error("MockupStatusCommand excute fail: " + ce.getMessage()); } catch (Exception e) { logger.error("MockupStatusCommand excute fail: " + e.getMessage()); } finally { if (in != null) { try { in.close(); } catch (IOException e) { logger.error("BufferedReader could not be closed", e); } } return result.toString(); } } | static String getMD5Hash(String str) throws NoSuchAlgorithmException { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(str.getBytes()); byte[] b = md.digest(); StringBuffer sb = new StringBuffer(); for (int i = 0; i < b.length; i++) { int v = (int) b[i]; v = v < 0 ? 0x100 + v : v; String cc = Integer.toHexString(v); if (cc.length() == 1) sb.append('0'); sb.append(cc); } return sb.toString(); } | 19,071 |
1 | private void doIt() throws Throwable { GenericDAO<User> dao = DAOFactory.createDAO(User.class); try { final User user = dao.findUniqueByCriteria(Expression.eq("login", login)); if (user == null) throw new IllegalArgumentException("Specified user isn't exist"); if (srcDir.isDirectory() && srcDir.exists()) { final String[] fileList = srcDir.list(new XFilenameFilter() { public boolean accept(XFile dir, String file) { String[] fNArr = file.split("\\."); return (fNArr.length > 1 && (fNArr[fNArr.length - 1].equalsIgnoreCase("map") || fNArr[fNArr.length - 1].equalsIgnoreCase("plt") || fNArr[fNArr.length - 1].equalsIgnoreCase("wpt"))); } }); int pointsCounter = 0; int tracksCounter = 0; int mapsCounter = 0; for (final String fName : fileList) { try { TransactionManager.beginTransaction(); } catch (Throwable e) { logger.error(e); throw e; } final XFile file = new XFile(srcDir, fName); InputStream in = new XFileInputStream(file); try { ArrayList<UserMapOriginal> maps = new ArrayList<UserMapOriginal>(); ArrayList<MapTrackPointsScaleRequest> tracks = new ArrayList<MapTrackPointsScaleRequest>(); final byte[] headerBuf = new byte[1024]; if (in.read(headerBuf) <= 0) continue; final String fileHeader = new String(headerBuf); final boolean isOziWPT = (fileHeader.indexOf("OziExplorer Waypoint File") >= 0); final boolean isOziPLT = (fileHeader.indexOf("OziExplorer Track Point File") >= 0); final boolean isOziMAP = (fileHeader.indexOf("OziExplorer Map Data File") >= 0); final boolean isKML = (fileHeader.indexOf("<kml xmlns=") >= 0); if (isOziMAP || isOziPLT || isOziWPT || isKML) { in.close(); in = new XFileInputStream(file); } else continue; WPTPoint wp; if (isOziWPT) { try { wp = new WPTPointParser(in, "Cp1251").parse(); } catch (Throwable t) { wp = null; } if (wp != null) { Set<WayPointRow> rows = wp.getPoints(); for (WayPointRow row : rows) { final UserMapPoint p = BeanFactory.createUserPoint(row, user); logger.info("point:" + p.getGuid()); } pointsCounter += rows.size(); } } else if (isOziPLT) { PLTTrack plt; try { plt = new PLTTrackParser(in, "Cp1251").parse(); } catch (Throwable t) { plt = null; } if (plt != null) { final UserMapTrack t = BeanFactory.createUserTrack(plt, user); tracks.add(new MapTrackPointsScaleRequest(t)); tracksCounter++; logger.info("track:" + t.getGuid()); } } else if (isOziMAP) { MapProjection projection; MAPParser parser = new MAPParser(in, "Cp1251"); try { projection = parser.parse(); } catch (Throwable t) { projection = null; } if (projection != null && projection.getPoints() != null && projection.getPoints().size() >= 2) { GenericDAO<UserMapOriginal> mapDao = DAOFactory.createDAO(UserMapOriginal.class); final UserMapOriginal mapOriginal = new UserMapOriginal(); mapOriginal.setName(projection.getTitle()); mapOriginal.setUser(user); mapOriginal.setState(UserMapOriginal.State.UPLOAD); mapOriginal.setSubstate(UserMapOriginal.SubState.COMPLETE); MapManager.updateProjection(projection, mapOriginal); final XFile srcFile = new XFile(srcDir, projection.getPath()); if (!srcFile.exists() || !srcFile.isFile()) throw new IllegalArgumentException("file: " + srcFile.getPath() + " not found"); final XFile mapStorage = new XFile(new XFile(Configuration.getInstance().getPrivateMapStorage().toString()), mapOriginal.getGuid()); mapStorage.mkdir(); XFile dstFile = new XFile(mapStorage, mapOriginal.getGuid()); XFileOutputStream out = new XFileOutputStream(dstFile); XFileInputStream inImg = new XFileInputStream(srcFile); IOUtils.copy(inImg, out); out.flush(); out.close(); inImg.close(); mapDao.save(mapOriginal); maps.add(mapOriginal); srcFile.delete(); mapsCounter++; logger.info("map:" + mapOriginal.getGuid()); } } else logger.warn("unsupported file format: " + file.getName()); TransactionManager.commitTransaction(); for (MapTrackPointsScaleRequest track : tracks) { if (track != null) { try { PoolClientInterface pool = PoolFactory.getInstance().getClientPool(); if (pool == null) throw new IllegalStateException("pool not found"); pool.put(track, new StatesStack(new byte[] { 0x00, 0x11 }), GeneralCompleteStrategy.class); } catch (Throwable t) { logger.error(t); } } } } catch (Throwable e) { logger.error("Error importing", e); TransactionManager.rollbackTransaction(); } finally { in.close(); file.delete(); } } logger.info("waypoints: " + pointsCounter + "\ntracks: " + tracksCounter + "\nmaps: " + mapsCounter); } } catch (Throwable e) { logger.error("Error importing", e); } } | public void getFile(OutputStream output, Fragment fragment) throws Exception { Assert.Arg.notNull(output, "output"); Assert.Arg.notNull(fragment, "fragment"); Assert.Arg.notNull(fragment.getId(), "fragment.getId()"); if (this.delegate != null) { this.delegate.getFile(output, fragment); return; } ensureBaseDirectoryCreated(); File filePath = getFragmentFilePath(fragment); InputStream input = FileUtils.openInputStream(filePath); try { IOUtils.copyLarge(input, output); } finally { IOUtils.closeQuietly(input); } } | 19,072 |
0 | public void patchFile(final File classFile) { if (!classFile.exists()) { myErrors.add(new FormErrorInfo(null, "Class to bind does not exist: " + myRootContainer.getClassToBind())); return; } FileInputStream fis; try { byte[] patchedData; fis = new FileInputStream(classFile); try { patchedData = patchClass(fis); if (patchedData == null) { return; } } finally { fis.close(); } FileOutputStream fos = new FileOutputStream(classFile); try { fos.write(patchedData); } finally { fos.close(); } } catch (IOException e) { myErrors.add(new FormErrorInfo(null, "Cannot read or write class file " + classFile.getPath() + ": " + e.toString())); } } | public static GoogleResponse getElevation(String lat, String lon) throws IOException { String url = "http://maps.google.com/maps/api/elevation/xml?locations="; url = url + String.valueOf(lat); url = url + ","; url = url + String.valueOf(lon); url = url + "&sensor=false"; BufferedReader in = new BufferedReader(new InputStreamReader(new URL(url).openStream())); String line; GoogleResponse googleResponse = new GoogleResponse(); googleResponse.lat = Double.valueOf(lat); googleResponse.lon = Double.valueOf(lon); while ((line = in.readLine()) != null) { line = line.trim(); if (line.startsWith("<status>")) { line = line.replace("<status>", ""); line = line.replace("</status>", ""); googleResponse.status = line; if (!line.toLowerCase().equals("ok")) return googleResponse; } else if (line.startsWith("<elevation>")) { line = line.replace("<elevation>", ""); line = line.replace("</elevation>", ""); googleResponse.elevation = Double.valueOf(line); return googleResponse; } } return googleResponse; } | 19,073 |
0 | private static ISimpleChemObjectReader createReader(URL url, String urlString, String type) throws CDKException { if (type == null) { type = "mol"; } ISimpleChemObjectReader cor = null; cor = new MDLV2000Reader(getReader(url), Mode.RELAXED); try { ReaderFactory factory = new ReaderFactory(); cor = factory.createReader(getReader(url)); if (cor instanceof CMLReader) { cor = new CMLReader(urlString); } } catch (IOException ioExc) { } catch (Exception exc) { } if (cor == null) { if (type.equals(JCPFileFilter.cml) || type.equals(JCPFileFilter.xml)) { cor = new CMLReader(urlString); } else if (type.equals(JCPFileFilter.sdf)) { cor = new MDLV2000Reader(getReader(url)); } else if (type.equals(JCPFileFilter.mol)) { cor = new MDLV2000Reader(getReader(url)); } else if (type.equals(JCPFileFilter.inchi)) { try { cor = new INChIReader(new URL(urlString).openStream()); } catch (MalformedURLException e) { } catch (IOException e) { } } else if (type.equals(JCPFileFilter.rxn)) { cor = new MDLRXNV2000Reader(getReader(url)); } else if (type.equals(JCPFileFilter.smi)) { cor = new SMILESReader(getReader(url)); } } if (cor == null) { throw new CDKException(GT._("Could not determine file format")); } if (cor instanceof MDLV2000Reader) { try { BufferedReader in = new BufferedReader(getReader(url)); String line; while ((line = in.readLine()) != null) { if (line.equals("$$$$")) { String message = GT._("It seems you opened a mol or sdf" + " file containing several molecules. " + "Only the first one will be shown"); JOptionPane.showMessageDialog(null, message, GT._("sdf-like file"), JOptionPane.INFORMATION_MESSAGE); break; } } } catch (IOException ex) { } } return cor; } | private void copyFile(File file, File targetFile) { try { BufferedInputStream bis = new BufferedInputStream(new FileInputStream(file)); BufferedOutputStream bos = new BufferedOutputStream(new FileOutputStream(targetFile)); byte[] tmp = new byte[8192]; int read = -1; while ((read = bis.read(tmp)) > 0) { bos.write(tmp, 0, read); } bis.close(); bos.close(); } catch (Exception e) { if (!targetFile.delete()) { System.err.println("Ups, created copy cant be deleted (" + targetFile.getAbsolutePath() + ")"); } } } | 19,074 |
0 | public static void saveDigraph(mainFrame parentFrame, DigraphView digraphView, File tobeSaved) { DigraphFile digraphFile = new DigraphFile(); DigraphTextFile digraphTextFile = new DigraphTextFile(); try { if (!DigraphFile.DIGRAPH_FILE_EXTENSION.equals(getExtension(tobeSaved))) { tobeSaved = new File(tobeSaved.getPath() + "." + DigraphFile.DIGRAPH_FILE_EXTENSION); } File dtdFile = new File(tobeSaved.getParent() + "/" + DigraphFile.DTD_FILE); if (!dtdFile.exists()) { File baseDigraphDtdFile = parentFrame.getDigraphDtdFile(); if (baseDigraphDtdFile != null && baseDigraphDtdFile.exists()) { try { BufferedOutputStream bos = new BufferedOutputStream(new FileOutputStream(dtdFile)); BufferedInputStream bis = new BufferedInputStream(new FileInputStream(baseDigraphDtdFile)); while (bis.available() > 1) { bos.write(bis.read()); } bis.close(); bos.close(); } catch (IOException ex) { System.out.println("Unable to Write Digraph DTD File: " + ex.getMessage()); } } else { System.out.println("Unable to Find Base Digraph DTD File: "); } } Digraph digraph = digraphView.getDigraph(); digraphFile.saveDigraph(tobeSaved, digraph); String fileName = tobeSaved.getName(); int extensionIndex = fileName.lastIndexOf("."); if (extensionIndex > 0) { fileName = fileName.substring(0, extensionIndex + 1) + "txt"; } else { fileName = fileName + ".txt"; } File textFile = new File(tobeSaved.getParent() + "/" + fileName); digraphTextFile.saveDigraph(textFile, digraph); digraphView.setDigraphDirty(false); parentFrame.setFilePath(tobeSaved.getPath()); parentFrame.setSavedOnce(true); } catch (DigraphFileException exep) { JOptionPane.showMessageDialog(parentFrame, "Error Saving File:\n" + exep.getMessage(), "Save Error", JOptionPane.ERROR_MESSAGE); } catch (DigraphException exep) { JOptionPane.showMessageDialog(parentFrame, "Error Retrieving Digraph from View:\n" + exep.getMessage(), "Save Error", JOptionPane.ERROR_MESSAGE); } } | public void start(OutputStream bytes, Target target) throws IOException { URLConnection conn = url.openConnection(); InputStream fis = conn.getInputStream(); byte[] buf = new byte[4096]; while (true) { int bytesRead = fis.read(buf); if (bytesRead < 1) break; bytes.write(buf, 0, bytesRead); } fis.close(); } | 19,075 |
0 | public void doPost(HttpServletRequest request, HttpServletResponse response) throws ServletException, IOException { response.setContentType("text/plain;charset=UTF-8"); request.setCharacterEncoding("utf-8"); HttpURLConnection httpConn = null; byte[] result = null; try { byte[] bytes = HttpUtil.getHttpURLReturnData(request); if (-1 == bytes.length || 23 > bytes.length) throw new Exception(); MsgPrint.showMsg("========byte length" + bytes.length); String userTag = request.getParameter("userTag"); String isEncrypt = request.getParameter("isEncrypt"); URL httpurl = new URL(ProtocolContanst.TRANSFERS_URL + userTag + "&isEncrypt=" + isEncrypt); httpConn = (HttpURLConnection) httpurl.openConnection(); httpConn.setDoOutput(true); httpConn.setRequestProperty("Content-Length", String.valueOf(bytes.length)); OutputStream outputStream = httpConn.getOutputStream(); outputStream.write(bytes); outputStream.close(); InputStream is = httpConn.getInputStream(); if (0 >= httpConn.getContentLength()) { throw new Exception(); } byte[] resultBytes = new byte[httpConn.getContentLength()]; byte[] tempByte = new byte[1024]; int length = 0; int index = 0; while ((length = is.read(tempByte)) != -1) { System.arraycopy(tempByte, 0, resultBytes, index, length); index += length; } is.close(); result = resultBytes; } catch (Exception e) { } ServletOutputStream sos = response.getOutputStream(); if (null != result) { response.setContentLength(result.length); sos.write(result); } else { response.setContentLength(26); sos.write(new byte[] { 48, 48, 55, -23, 3, 56, 49, 54, 57, 55, 49, 51, 54, 72, 71, 52, 48, 1, 3, 3, 48, 48, 48, 48, 48, 48 }); } sos.flush(); sos.close(); } | private boolean saveLOBDataToFileSystem() { if ("".equals(m_attachmentPathRoot)) { log.severe("no attachmentPath defined"); return false; } if (m_items == null || m_items.size() == 0) { setBinaryData(null); return true; } final DocumentBuilderFactory factory = DocumentBuilderFactory.newInstance(); try { final DocumentBuilder builder = factory.newDocumentBuilder(); final Document document = builder.newDocument(); final Element root = document.createElement("attachments"); document.appendChild(root); document.setXmlStandalone(true); for (int i = 0; i < m_items.size(); i++) { log.fine(m_items.get(i).toString()); File entryFile = m_items.get(i).getFile(); final String path = entryFile.getAbsolutePath(); log.fine(path + " - " + m_attachmentPathRoot); if (!path.startsWith(m_attachmentPathRoot)) { log.fine("move file: " + path); FileChannel in = null; FileChannel out = null; try { final File destFolder = new File(m_attachmentPathRoot + File.separator + getAttachmentPathSnippet()); if (!destFolder.exists()) { if (!destFolder.mkdirs()) { log.warning("unable to create folder: " + destFolder.getPath()); } } final File destFile = new File(m_attachmentPathRoot + File.separator + getAttachmentPathSnippet() + File.separator + entryFile.getName()); in = new FileInputStream(entryFile).getChannel(); out = new FileOutputStream(destFile).getChannel(); in.transferTo(0, in.size(), out); in.close(); out.close(); if (entryFile.exists()) { if (!entryFile.delete()) { entryFile.deleteOnExit(); } } entryFile = destFile; } catch (IOException e) { e.printStackTrace(); log.severe("unable to copy file " + entryFile.getAbsolutePath() + " to " + m_attachmentPathRoot + File.separator + getAttachmentPathSnippet() + File.separator + entryFile.getName()); } finally { if (in != null && in.isOpen()) { in.close(); } if (out != null && out.isOpen()) { out.close(); } } } final Element entry = document.createElement("entry"); entry.setAttribute("name", getEntryName(i)); String filePathToStore = entryFile.getAbsolutePath(); filePathToStore = filePathToStore.replaceFirst(m_attachmentPathRoot.replaceAll("\\\\", "\\\\\\\\"), ATTACHMENT_FOLDER_PLACEHOLDER); log.fine(filePathToStore); entry.setAttribute("file", filePathToStore); root.appendChild(entry); } final Source source = new DOMSource(document); final ByteArrayOutputStream bos = new ByteArrayOutputStream(); final Result result = new StreamResult(bos); final Transformer xformer = TransformerFactory.newInstance().newTransformer(); xformer.transform(source, result); final byte[] xmlData = bos.toByteArray(); log.fine(bos.toString()); setBinaryData(xmlData); return true; } catch (Exception e) { log.log(Level.SEVERE, "saveLOBData", e); } setBinaryData(null); return false; } | 19,076 |
0 | private void analyseCorpus(final IStatusDisplayer fStatus) { final String sDistrosFile = "Distros.tmp"; final String sSymbolsFile = "Symbols.tmp"; Chunker = new EntropyChunker(); int Levels = 2; sgOverallGraph = new SymbolicGraph(1, Levels); siIndex = new SemanticIndex(sgOverallGraph); try { siIndex.MeaningExtractor = new LocalWordNetMeaningExtractor(); } catch (IOException ioe) { siIndex.MeaningExtractor = null; } try { DocumentSet dsSet = new DocumentSet(FilePathEdt.getText(), 1.0); dsSet.createSets(true, (double) 100 / 100); int iCurCnt, iTotal; String sFile = ""; Iterator iIter = dsSet.getTrainingSet().iterator(); iTotal = dsSet.getTrainingSet().size(); if (iTotal == 0) { appendToLog("No input documents.\n"); appendToLog("======DONE=====\n"); return; } appendToLog("Training chunker..."); Chunker.train(dsSet.toFilenameSet(DocumentSet.FROM_WHOLE_SET)); appendToLog("Setting delimiters..."); setDelimiters(Chunker.getDelimiters()); iCurCnt = 0; cdDoc = new DistributionDocument[Levels]; for (int iCnt = 0; iCnt < Levels; iCnt++) cdDoc[iCnt] = new DistributionDocument(1, MinLevel + iCnt); fStatus.setVisible(true); ThreadList t = new ThreadList(Runtime.getRuntime().availableProcessors() + 1); appendToLog("(Pass 1/3) Loading files..." + sFile); TreeSet tsOverallSymbols = new TreeSet(); while (iIter.hasNext()) { sFile = ((CategorizedFileEntry) iIter.next()).getFileName(); fStatus.setStatus("(Pass 1/3) Loading file..." + sFile, (double) iCurCnt / iTotal); final DistributionDocument[] cdDocArg = cdDoc; final String sFileArg = sFile; for (int iCnt = 0; iCnt < cdDoc.length; iCnt++) { final int iCntArg = iCnt; while (!t.addThreadFor(new Runnable() { public void run() { if (!RightToLeftText) cdDocArg[iCntArg].loadDataStringFromFile(sFileArg, false); else { cdDocArg[iCntArg].setDataString(utils.reverseString(utils.loadFileToString(sFileArg)), iCntArg, false); } } })) Thread.yield(); } try { t.waitUntilCompletion(); } catch (InterruptedException ex) { ex.printStackTrace(System.err); appendToLog("Interrupted..."); sgOverallGraph.removeNotificationListener(); return; } sgOverallGraph.setDataString(((new StringBuffer().append((char) StreamTokenizer.TT_EOF))).toString()); sgOverallGraph.loadFromFile(sFile); fStatus.setStatus("Loaded file..." + sFile, (double) ++iCurCnt / iTotal); Thread.yield(); } Set sSymbols = null; File fPreviousSymbols = new File(sSymbolsFile); boolean bSymbolsLoadedOK = false; if (fPreviousSymbols.exists()) { System.err.println("ATTENTION: Using previous symbols..."); try { FileInputStream fis = new FileInputStream(fPreviousSymbols); ObjectInputStream ois = new ObjectInputStream(fis); sSymbols = (Set) ois.readObject(); ois.close(); bSymbolsLoadedOK = true; } catch (FileNotFoundException ex) { ex.printStackTrace(System.err); } catch (IOException ex) { ex.printStackTrace(System.err); } catch (ClassNotFoundException ex) { ex.printStackTrace(System.err); } } if (!bSymbolsLoadedOK) sSymbols = getSymbolsByProbabilities(sgOverallGraph.getDataString(), fStatus); int iMinSymbolSize = Integer.MAX_VALUE; int iMaxSymbolSize = Integer.MIN_VALUE; Iterator iSymbol = sSymbols.iterator(); while (iSymbol.hasNext()) { String sCurSymbol = (String) iSymbol.next(); if (iMaxSymbolSize < sCurSymbol.length()) iMaxSymbolSize = sCurSymbol.length(); if (iMinSymbolSize > sCurSymbol.length()) iMinSymbolSize = sCurSymbol.length(); } try { FileOutputStream fos = new FileOutputStream(sSymbolsFile); ObjectOutputStream oos = new ObjectOutputStream(fos); oos.writeObject(sSymbols); oos.close(); } catch (FileNotFoundException ex) { ex.printStackTrace(System.err); } catch (IOException ex) { ex.printStackTrace(System.err); } appendToLog("(Pass 2/3) Determining symbol distros per n-gram size..."); iIter = dsSet.getTrainingSet().iterator(); iTotal = dsSet.getTrainingSet().size(); if (iTotal == 0) { appendToLog("No input documents.\n"); appendToLog("======DONE=====\n"); return; } iCurCnt = 0; Distribution dSymbolsPerSize = new Distribution(); Distribution dNonSymbolsPerSize = new Distribution(); Distribution dSymbolSizes = new Distribution(); File fPreviousRun = new File(sDistrosFile); boolean bDistrosLoadedOK = false; if (fPreviousRun.exists()) { System.err.println("ATTENTION: Using previous distros..."); try { FileInputStream fis = new FileInputStream(fPreviousRun); ObjectInputStream ois = new ObjectInputStream(fis); dSymbolsPerSize = (Distribution) ois.readObject(); dNonSymbolsPerSize = (Distribution) ois.readObject(); dSymbolSizes = (Distribution) ois.readObject(); ois.close(); bDistrosLoadedOK = true; } catch (FileNotFoundException ex) { ex.printStackTrace(System.err); } catch (IOException ex) { ex.printStackTrace(System.err); dSymbolsPerSize = new Distribution(); dNonSymbolsPerSize = new Distribution(); dSymbolSizes = new Distribution(); } catch (ClassNotFoundException ex) { ex.printStackTrace(System.err); dSymbolsPerSize = new Distribution(); dNonSymbolsPerSize = new Distribution(); dSymbolSizes = new Distribution(); } } if (!bDistrosLoadedOK) while (iIter.hasNext()) { fStatus.setStatus("(Pass 2/3) Parsing file..." + sFile, (double) iCurCnt++ / iTotal); sFile = ((CategorizedFileEntry) iIter.next()).getFileName(); String sDataString = ""; try { ByteArrayOutputStream bsOut = new ByteArrayOutputStream(); FileInputStream fiIn = new FileInputStream(sFile); int iData = 0; while ((iData = fiIn.read()) > -1) bsOut.write(iData); sDataString = bsOut.toString(); } catch (IOException ioe) { ioe.printStackTrace(System.err); } final Distribution dSymbolsPerSizeArg = dSymbolsPerSize; final Distribution dNonSymbolsPerSizeArg = dNonSymbolsPerSize; final Distribution dSymbolSizesArg = dSymbolSizes; final String sDataStringArg = sDataString; final Set sSymbolsArg = sSymbols; for (int iSymbolSize = iMinSymbolSize; iSymbolSize <= iMaxSymbolSize; iSymbolSize++) { final int iSymbolSizeArg = iSymbolSize; while (!t.addThreadFor(new Runnable() { public void run() { NGramDocument ndCur = new NGramDocument(iSymbolSizeArg, iSymbolSizeArg, 1, iSymbolSizeArg, iSymbolSizeArg); ndCur.setDataString(sDataStringArg); int iSymbolCnt = 0; int iNonSymbolCnt = 0; Iterator iExtracted = ndCur.getDocumentGraph().getGraphLevel(0).getVertexSet().iterator(); while (iExtracted.hasNext()) { String sCur = ((Vertex) iExtracted.next()).toString(); if (sSymbolsArg.contains(sCur)) { iSymbolCnt++; synchronized (dSymbolSizesArg) { dSymbolSizesArg.setValue(sCur.length(), dSymbolSizesArg.getValue(sCur.length()) + 1.0); } } else iNonSymbolCnt++; } synchronized (dSymbolsPerSizeArg) { dSymbolsPerSizeArg.setValue(iSymbolSizeArg, dSymbolsPerSizeArg.getValue(iSymbolSizeArg) + iSymbolCnt); } synchronized (dNonSymbolsPerSizeArg) { dNonSymbolsPerSizeArg.setValue(iSymbolSizeArg, dNonSymbolsPerSizeArg.getValue(iSymbolSizeArg) + iNonSymbolCnt); } } })) Thread.yield(); } } if (!bDistrosLoadedOK) try { t.waitUntilCompletion(); try { FileOutputStream fos = new FileOutputStream(sDistrosFile); ObjectOutputStream oos = new ObjectOutputStream(fos); oos.writeObject(dSymbolsPerSize); oos.writeObject(dNonSymbolsPerSize); oos.writeObject(dSymbolSizes); oos.close(); } catch (FileNotFoundException ex) { ex.printStackTrace(System.err); } catch (IOException ex) { ex.printStackTrace(System.err); } } catch (InterruptedException ex) { appendToLog("Interrupted..."); sgOverallGraph.removeNotificationListener(); return; } appendToLog("\n(Pass 3/3) Determining optimal n-gram range...\n"); NGramSizeEstimator nseEstimator = new NGramSizeEstimator(dSymbolsPerSize, dNonSymbolsPerSize); IntegerPair p = nseEstimator.getOptimalRange(); appendToLog("\nProposed n-gram sizes:" + p.first() + "," + p.second()); fStatus.setStatus("Determining optimal distance...", 0.0); DistanceEstimator de = new DistanceEstimator(dSymbolsPerSize, dNonSymbolsPerSize, nseEstimator); int iBestDist = de.getOptimalDistance(1, nseEstimator.getMaxRank() * 2, p.first(), p.second()); fStatus.setStatus("Determining optimal distance...", 1.0); appendToLog("\nOptimal distance:" + iBestDist); appendToLog("======DONE=====\n"); } finally { sgOverallGraph.removeNotificationListener(); } } | public String hash(String plainTextPassword) { try { MessageDigest digest = MessageDigest.getInstance(digestAlgorithm); digest.update(plainTextPassword.getBytes(charset)); byte[] rawHash = digest.digest(); return new String(Hex.encodeHex(rawHash)); } catch (Exception ex) { throw new RuntimeException(ex); } } | 19,077 |
0 | @Test public void testWriteAndRead() throws Exception { JCFSFileServer server = new JCFSFileServer(defaultTcpPort, defaultTcpAddress, defaultUdpPort, defaultUdpAddress, dir, 0, 0); JCFS.configureDiscovery(defaultUdpAddress, defaultUdpPort); try { server.start(); RFile file = new RFile("testreadwrite.txt"); RFileOutputStream out = new RFileOutputStream(file); out.write("test".getBytes("utf-8")); out.close(); RFileInputStream in = new RFileInputStream(file); byte[] buffer = new byte[4]; int readCount = in.read(buffer); in.close(); assertEquals(4, readCount); String resultRead = new String(buffer, "utf-8"); assertEquals("test", resultRead); } finally { server.stop(); } } | @Override public AudioFileFormat getAudioFileFormat(URL url) throws UnsupportedAudioFileException, IOException { if (TDebug.TraceAudioFileReader) { TDebug.out("getAudioFileFormat(URL url)"); } InputStream inputStream = url.openStream(); try { return getAudioFileFormat(inputStream); } finally { if (inputStream != null) { inputStream.close(); } } } | 19,078 |
0 | public File addFile(File file, String suffix) throws IOException { if (file.exists() && file.isFile()) { File nf = File.createTempFile(prefix, "." + suffix, workdir); nf.delete(); if (!file.renameTo(nf)) { IOUtils.copy(file, nf); } synchronized (fileList) { fileList.add(nf); } if (log.isDebugEnabled()) { log.debug("Add file [" + file.getPath() + "] -> [" + nf.getPath() + "]"); } return nf; } return file; } | public static boolean checkVersion(String vers) throws IOException { try { String tmp = ""; URL url = new URL("http://rbmsoft.com.br/apis/ql/index.php?url=null&versao=" + vers); BufferedInputStream buf = new BufferedInputStream(url.openStream()); int dado = 0; char letra; while ((dado = buf.read()) != -1) { letra = (char) dado; tmp += letra; } if (tmp.contains("FALSE")) { return false; } else if (tmp.contains("TRUE")) { new UpdateCheck().updateDialog(); return true; } } catch (MalformedURLException e) { e.printStackTrace(); } return false; } | 19,079 |
0 | public static void main(String[] args) throws IOException { System.out.println("start"); URL url = new URL("https://spreadsheets.google.com/feeds/list/" + "0AnoMCh3_x82sdERLR3FvVDBIWXpjT1JlcENmOFdERVE/" + "od7/public/basic"); InputStream is = url.openStream(); BufferedReader br = new BufferedReader(new InputStreamReader(is)); String line; while ((line = br.readLine()) != null) { String[] mass = line.split("<entry>"); for (String m : mass) { System.out.println(m); } } } | public static void main(String[] args) throws IOException, WrongFormatException, URISyntaxException { System.out.println(new URI("google.com.ua.css").toString()); Scanner scc = new Scanner(System.in); System.err.print(scc.nextLine().substring(1)); ServerSocket s = new ServerSocket(5354); while (true) { Socket client = s.accept(); InputStream iStream = client.getInputStream(); BufferedReader bf = new BufferedReader(new InputStreamReader(iStream)); String line = ""; while (!(line = bf.readLine()).equals("")) { System.out.println(line); } System.out.println("end of request"); new PrintWriter(client.getOutputStream()).println("hi"); bf.close(); } } | 19,080 |
0 | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | private static void ftpTest() { FTPClient f = new FTPClient(); try { f.connect("oscomak.net"); System.out.print(f.getReplyString()); f.setFileType(FTPClient.BINARY_FILE_TYPE); } catch (SocketException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } String password = JOptionPane.showInputDialog("Enter password"); if (password == null || password.equals("")) { System.out.println("No password"); return; } try { f.login("oscomak_pointrel", password); System.out.print(f.getReplyString()); } catch (IOException e) { e.printStackTrace(); } try { String workingDirectory = f.printWorkingDirectory(); System.out.println("Working directory: " + workingDirectory); System.out.print(f.getReplyString()); } catch (IOException e1) { e1.printStackTrace(); } try { f.enterLocalPassiveMode(); System.out.print(f.getReplyString()); System.out.println("Trying to list files"); String[] fileNames = f.listNames(); System.out.print(f.getReplyString()); System.out.println("Got file list fileNames: " + fileNames.length); for (String fileName : fileNames) { System.out.println("File: " + fileName); } System.out.println(); System.out.println("done reading stream"); System.out.println("trying alterative way to read stream"); ByteArrayOutputStream outputStream = new ByteArrayOutputStream(); f.retrieveFile(fileNames[0], outputStream); System.out.println("size: " + outputStream.size()); System.out.println(outputStream.toString()); System.out.println("done with alternative"); System.out.println("Trying to store file back"); ByteArrayInputStream inputStream = new ByteArrayInputStream(outputStream.toByteArray()); boolean storeResult = f.storeFile("test.txt", inputStream); System.out.println("Done storing " + storeResult); f.disconnect(); System.out.print(f.getReplyString()); System.out.println("disconnected"); } catch (IOException e) { e.printStackTrace(); } } | 19,081 |
1 | public void testStorageStringWriter() throws Exception { TranslationResponseInMemory r = new TranslationResponseInMemory(2048, "UTF-8"); { Writer w = r.getWriter(); w.write("This is an example"); w.write(" and another one."); w.flush(); assertEquals("This is an example and another one.", r.getText()); } { InputStream input = r.getInputStream(); StringWriter writer = new StringWriter(); try { IOUtils.copy(input, writer, "UTF-8"); } finally { input.close(); writer.close(); } assertEquals("This is an example and another one.", writer.toString()); } try { r.getOutputStream(); fail("Is not allowed as you already called getWriter()."); } catch (IOException e) { } { Writer output = r.getWriter(); output.write(" and another line"); output.write(" and write some more"); assertEquals("This is an example and another one. and another line and write some more", r.getText()); } { r.addText(" and some more."); assertEquals("This is an example and another one. and another line and write some more and some more.", r.getText()); } r.setEndState(ResponseStateOk.getInstance()); assertEquals(ResponseStateOk.getInstance(), r.getEndState()); try { r.getWriter(); fail("Previous line should throw IOException as result closed."); } catch (IOException e) { } } | public void copy(File src, File dest) throws FileNotFoundException, IOException { FileInputStream srcStream = new FileInputStream(src); FileOutputStream destStream = new FileOutputStream(dest); FileChannel srcChannel = srcStream.getChannel(); FileChannel destChannel = destStream.getChannel(); srcChannel.transferTo(0, srcChannel.size(), destChannel); destChannel.close(); srcChannel.close(); destStream.close(); srcStream.close(); } | 19,082 |
0 | private static void recurseFiles(File root, File file, TarArchiveOutputStream taos, boolean absolute) throws IOException { if (file.isDirectory()) { File[] files = file.listFiles(); for (File file2 : files) { recurseFiles(root, file2, taos, absolute); } } else if ((!file.getName().endsWith(".tar")) && (!file.getName().endsWith(".TAR"))) { String filename = null; if (absolute) { filename = file.getAbsolutePath().substring(root.getAbsolutePath().length()); } else { filename = file.getName(); } TarArchiveEntry tae = new TarArchiveEntry(filename); tae.setSize(file.length()); taos.putArchiveEntry(tae); FileInputStream fis = new FileInputStream(file); IOUtils.copy(fis, taos); taos.closeArchiveEntry(); } } | private static String md5(String input) { String res = ""; try { MessageDigest cript = MessageDigest.getInstance("MD5"); cript.reset(); cript.update(input.getBytes()); byte[] md5 = cript.digest(); String tmp = ""; for (int i = 0; i < md5.length; i++) { tmp = (Integer.toHexString(0xFF & md5[i])); if (tmp.length() == 1) { res += "0" + tmp; } else { res += tmp; } } } catch (NoSuchAlgorithmException ex) { Log4k.error(pdfPrinter.class.getName(), ex.getMessage()); } return res; } | 19,083 |
0 | public static void executa(String arquivo, String filial, String ip) { String drive = arquivo.substring(0, 2); if (drive.indexOf(":") == -1) drive = ""; Properties p = Util.lerPropriedades(arquivo); String servidor = p.getProperty("servidor"); String impressora = p.getProperty("fila"); String arqRel = new String(drive + p.getProperty("arquivo")); String copias = p.getProperty("copias"); if (filial.equalsIgnoreCase(servidor)) { Socket s = null; int tentativas = 0; boolean conectado = false; while (!conectado) { try { tentativas++; System.out.println("Tentando conectar " + ip + " (" + tentativas + ")"); s = new Socket(ip, 7000); conectado = s.isConnected(); } catch (ConnectException ce) { System.err.println(ce.getMessage()); System.err.println(ce.getCause()); } catch (UnknownHostException uhe) { System.err.println(uhe.getMessage()); } catch (IOException ioe) { System.err.println(ioe.getMessage()); } } FileInputStream in = null; BufferedOutputStream out = null; try { in = new FileInputStream(new File(arqRel)); out = new BufferedOutputStream(new GZIPOutputStream(s.getOutputStream())); } catch (FileNotFoundException e3) { e3.printStackTrace(); } catch (IOException e3) { e3.printStackTrace(); } String arqtr = arqRel.substring(2); System.out.println("Proximo arquivo: " + arqRel + " ->" + arqtr); while (arqtr.length() < 30) arqtr += " "; while (impressora.length() < 30) impressora += " "; byte aux[] = new byte[30]; byte cop[] = new byte[2]; try { aux = arqtr.getBytes("UTF8"); out.write(aux); aux = impressora.getBytes("UTF8"); out.write(aux); cop = copias.getBytes("UTF8"); out.write(cop); out.flush(); } catch (UnsupportedEncodingException e2) { e2.printStackTrace(); } catch (IOException e2) { e2.printStackTrace(); } byte b[] = new byte[1024]; int nBytes; try { while ((nBytes = in.read(b)) != -1) out.write(b, 0, nBytes); out.flush(); out.close(); in.close(); s.close(); } catch (IOException e1) { e1.printStackTrace(); } System.out.println("Arquivo " + arqRel + " foi transmitido. \n\n"); try { Thread.sleep(1000); } catch (InterruptedException e) { e.printStackTrace(); } SimpleDateFormat dfArq = new SimpleDateFormat("yyyy-MM-dd"); SimpleDateFormat dfLog = new SimpleDateFormat("yyyy-MM-dd HH:mm:ss"); String arqLog = "log" + filial + dfArq.format(new Date()) + ".txt"; PrintWriter pw = null; try { pw = new PrintWriter(new FileWriter(arqLog, true)); } catch (IOException e) { e.printStackTrace(); } pw.println("Arquivo: " + arquivo + " " + dfLog.format(new Date())); pw.flush(); pw.close(); File f = new File(arquivo); while (!f.delete()) { System.out.println("Erro apagando " + arquivo); } } } | protected InputStream acquireInputStream(String filename) throws IOException { Validate.notEmpty(filename); File f = new File(filename); if (f.exists()) { this.originalFilename = f.getName(); return new FileInputStream(f); } URL url = getClass().getClassLoader().getResource(filename); if (url == null) { if (!filename.startsWith("/")) { url = getClass().getClassLoader().getResource("/" + filename); if (url == null) { throw new IllegalArgumentException("File [" + filename + "] not found in classpath via " + getClass().getClassLoader().getClass()); } } } this.originalFilename = filename; return url.openStream(); } | 19,084 |
1 | public String MD5(String text) throws NoSuchAlgorithmException, UnsupportedEncodingException { MessageDigest md; md = MessageDigest.getInstance("MD5"); byte[] md5hash = new byte[32]; md.update(text.getBytes("iso-8859-1"), 0, text.length()); md5hash = md.digest(); return convertToHex(md5hash); } | public static String getHash(String input) { MessageDigest m; try { m = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); return null; } m.update(input.getBytes(), 0, input.length()); return new BigInteger(1, m.digest()).toString(16); } | 19,085 |
1 | private boolean copyFiles(File sourceDir, File destinationDir) { boolean result = false; try { if (sourceDir != null && destinationDir != null && sourceDir.exists() && destinationDir.exists() && sourceDir.isDirectory() && destinationDir.isDirectory()) { File sourceFiles[] = sourceDir.listFiles(); if (sourceFiles != null && sourceFiles.length > 0) { File destFiles[] = destinationDir.listFiles(); if (destFiles != null && destFiles.length > 0) { for (int i = 0; i < destFiles.length; i++) { if (destFiles[i] != null) { destFiles[i].delete(); } } } for (int i = 0; i < sourceFiles.length; i++) { if (sourceFiles[i] != null && sourceFiles[i].exists() && sourceFiles[i].isFile()) { String fileName = destFiles[i].getName(); File destFile = new File(destinationDir.getAbsolutePath() + "/" + fileName); if (!destFile.exists()) destFile.createNewFile(); FileInputStream in = new FileInputStream(sourceFiles[i]); FileOutputStream out = new FileOutputStream(destFile); FileChannel fcIn = in.getChannel(); FileChannel fcOut = out.getChannel(); fcIn.transferTo(0, fcIn.size(), fcOut); } } } } result = true; } catch (Exception e) { System.out.println("Exception in copyFiles Method : " + e); } return result; } | private void download(String fileName, HttpServletResponse response) throws IOException { TelnetInputStream ftpIn = ftpClient_sun.get(fileName); response.setHeader("Content-disposition", "attachment;filename=" + URLEncoder.encode(fileName, "UTF-8")); OutputStream out = null; try { out = response.getOutputStream(); IOUtils.copy(ftpIn, out); } finally { if (ftpIn != null) { ftpIn.close(); } } } | 19,086 |
0 | public String getTemplateString(String templateFilename) { InputStream is = servletContext.getResourceAsStream("/resources/" + templateFilename); StringWriter writer = new StringWriter(); try { IOUtils.copy(is, writer); } catch (IOException e) { e.printStackTrace(); } return writer.toString(); } | @Override public void create(DisciplinaDTO disciplina) { try { this.criaConexao(false); } catch (ClassNotFoundException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } String sql = "insert into Disciplina select nextval('sq_Disciplina') as id, ? as nome"; PreparedStatement stmt = null; try { stmt = this.getConnection().prepareStatement(sql); stmt.setString(1, disciplina.getNome()); int retorno = stmt.executeUpdate(); if (retorno == 0) { this.getConnection().rollback(); throw new SQLException("Ocorreu um erro inesperado no momento de inserir dados de Disciplina no banco!"); } this.getConnection().commit(); } catch (SQLException e) { try { this.getConnection().rollback(); } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } try { throw e; } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } } finally { try { stmt.close(); this.fechaConexao(); } catch (SQLException e) { try { throw e; } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } } } } | 19,087 |
1 | public static String computeMD5(InputStream input) { InputStream digestStream = null; try { MessageDigest md5 = MessageDigest.getInstance("MD5"); digestStream = new DigestInputStream(input, md5); IOUtils.copy(digestStream, new NullOutputStream()); return new String(Base64.encodeBase64(md5.digest()), "UTF-8"); } catch (NoSuchAlgorithmException e) { throw new RuntimeException(e); } catch (IOException e) { throw new RuntimeException(e); } finally { IOUtils.closeQuietly(digestStream); } } | public static boolean decodeFileToFile(String infile, String outfile) { boolean success = false; java.io.InputStream in = null; java.io.OutputStream out = null; try { in = new Base64.InputStream(new java.io.BufferedInputStream(new java.io.FileInputStream(infile)), Base64.DECODE); out = new java.io.BufferedOutputStream(new java.io.FileOutputStream(outfile)); byte[] buffer = new byte[65536]; int read = -1; while ((read = in.read(buffer)) >= 0) { out.write(buffer, 0, read); } success = true; } catch (java.io.IOException exc) { exc.printStackTrace(); } finally { try { in.close(); } catch (Exception exc) { } try { out.close(); } catch (Exception exc) { } } return success; } | 19,088 |
1 | public void run() { GZIPInputStream gzipInputStream = null; try { gzipInputStream = new GZIPInputStream(pipedInputStream); IOUtils.copy(gzipInputStream, outputStream); } catch (Throwable t) { ungzipThreadThrowableList.add(t); } finally { IOUtils.closeQuietly(gzipInputStream); IOUtils.closeQuietly(pipedInputStream); } } | private void publishMap(LWMap map) throws IOException { File savedMap = PublishUtil.saveMap(map); InputStream istream = new BufferedInputStream(new FileInputStream(savedMap)); OutputStream ostream = new BufferedOutputStream(new FileOutputStream(ActionUtil.selectFile("ConceptMap", "vue"))); int fileLength = (int) savedMap.length(); byte bytes[] = new byte[fileLength]; while (istream.read(bytes, 0, fileLength) != -1) ostream.write(bytes, 0, fileLength); istream.close(); ostream.close(); } | 19,089 |
0 | public void getDownloadInfo(String _url) throws Exception { URL url = new URL(_url); con = (HttpURLConnection) url.openConnection(); con.setRequestProperty("User-Agent", "test"); con.setRequestProperty("Accept", "*/*"); con.setRequestProperty("Range", "bytes=0-"); con.setRequestMethod("HEAD"); con.setUseCaches(false); con.connect(); con.disconnect(); if (mustRedirect()) secureRedirect(); url = con.getURL(); setURL(url.toString()); setSize(Long.parseLong(con.getHeaderField("Content-Length"))); setResumable(con.getResponseCode() == 206); setLastModified(con.getLastModified()); setRangeEnd(getSize() - 1); } | public static void write(File file, InputStream source) throws IOException { OutputStream outputStream = null; assert file != null : "file must not be null."; assert file.isFile() : "file must be a file."; assert file.canWrite() : "file must be writable."; assert source != null : "source must not be null."; try { outputStream = new BufferedOutputStream(new FileOutputStream(file)); IOUtils.copy(source, outputStream); outputStream.flush(); } finally { IOUtils.closeQuietly(outputStream); } } | 19,090 |
0 | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | public static String hash(String arg) throws NoSuchAlgorithmException { String input = arg; String output; MessageDigest md = MessageDigest.getInstance("SHA"); md.update(input.getBytes()); output = Hex.encodeHexString(md.digest()); return output; } | 19,091 |
1 | public void deployDir(File srcDir, String destDir) { File[] dirFiles = srcDir.listFiles(); for (int k = 0; dirFiles != null && k < dirFiles.length; k++) { if (!dirFiles[k].getName().startsWith(".")) { if (dirFiles[k].isFile()) { File deployFile = new File(destDir + File.separator + dirFiles[k].getName()); if (dirFiles[k].lastModified() != deployFile.lastModified() || dirFiles[k].length() != deployFile.length()) { IOUtils.copy(dirFiles[k], deployFile); } } else if (dirFiles[k].isDirectory()) { String newDestDir = destDir + File.separator + dirFiles[k].getName(); deployDir(dirFiles[k], newDestDir); } } } } | private void readObject(ObjectInputStream in) throws IOException, ClassNotFoundException { in.defaultReadObject(); OutputStream output = getOutputStream(); if (cachedContent != null) { output.write(cachedContent); } else { FileInputStream input = new FileInputStream(dfosFile); IOUtils.copy(input, output); dfosFile.delete(); dfosFile = null; } output.close(); cachedContent = null; } | 19,092 |
1 | public static void zip() throws Exception { System.out.println("zip()"); ZipOutputStream zipout = new ZipOutputStream(new FileOutputStream(new File("/zip/myzip.zip"))); ZipEntry entry = new ZipEntry("asdf.script"); zipout.putNextEntry(entry); byte buffer[] = new byte[BLOCKSIZE]; FileInputStream in = new FileInputStream(new File("/zip/asdf.script")); for (int length; (length = in.read(buffer, 0, BLOCKSIZE)) != -1; ) zipout.write(buffer, 0, length); in.close(); zipout.closeEntry(); zipout.close(); } | public static void copy(String from_name, String to_name) throws IOException { File from_file = new File(from_name); File to_file = new File(to_name); if (!from_file.exists()) abort("FileCopy: no such source file: " + from_name); if (!from_file.isFile()) abort("FileCopy: can't copy directory: " + from_name); if (!from_file.canRead()) abort("FileCopy: source file is unreadable: " + from_name); if (to_file.isDirectory()) to_file = new File(to_file, from_file.getName()); if (to_file.exists()) { if (!to_file.canWrite()) abort("FileCopy: destination file is unwriteable: " + to_name); System.out.print("Overwrite existing file " + to_name + "? (Y/N): "); System.out.flush(); BufferedReader in = new BufferedReader(new InputStreamReader(System.in)); String response = in.readLine(); if (!response.equals("Y") && !response.equals("y")) abort("FileCopy: existing file was not overwritten."); } else { String parent = to_file.getParent(); if (parent == null) parent = System.getProperty("user.dir"); File dir = new File(parent); if (!dir.exists()) abort("FileCopy: destination directory doesn't exist: " + parent); if (dir.isFile()) abort("FileCopy: destination is not a directory: " + parent); if (!dir.canWrite()) abort("FileCopy: destination directory is unwriteable: " + parent); } FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(from_file); to = new FileOutputStream(to_file); byte[] buffer = new byte[4096]; int bytes_read; while ((bytes_read = from.read(buffer)) != -1) to.write(buffer, 0, bytes_read); } finally { if (from != null) try { from.close(); } catch (IOException e) { ; } if (to != null) try { to.close(); } catch (IOException e) { ; } } } | 19,093 |
1 | public boolean backup() { try { File sd = Environment.getExternalStorageDirectory(); File data = Environment.getDataDirectory(); if (sd.canWrite()) { String currentDBPath = "/data/android.bluebox/databases/bluebox.db"; String backupDBPath = "/Android/bluebox.bak"; File currentDB = new File(data, currentDBPath); File backupDB = new File(sd, backupDBPath); if (currentDB.exists()) { FileChannel src = new FileInputStream(currentDB).getChannel(); FileChannel dst = new FileOutputStream(backupDB).getChannel(); dst.transferFrom(src, 0, src.size()); src.close(); dst.close(); return true; } } } catch (FileNotFoundException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } return false; } | private static void processFile(StreamDriver driver, String sourceName) throws Exception { String destName = sourceName + ".xml"; File dest = new File(destName); if (dest.exists()) { throw new IllegalArgumentException("File '" + destName + "' already exists!"); } FileChannel sourceChannel = new FileInputStream(sourceName).getChannel(); try { MappedByteBuffer sourceByteBuffer = sourceChannel.map(FileChannel.MapMode.READ_ONLY, 0, sourceChannel.size()); CharsetDecoder decoder = Charset.forName("ISO-8859-15").newDecoder(); CharBuffer sourceBuffer = decoder.decode(sourceByteBuffer); driver.generateXmlDocument(sourceBuffer, new FileOutputStream(dest)); } finally { sourceChannel.close(); } } | 19,094 |
1 | protected boolean loadJarLibrary(final String jarLib) { final String tempLib = System.getProperty("java.io.tmpdir") + File.separator + jarLib; boolean copied = IOUtils.copyFile(jarLib, tempLib); if (!copied) { return false; } System.load(tempLib); return true; } | public void parse(InputStream stream, ContentHandler handler, Metadata metadata, ParseContext context) throws IOException, SAXException, TikaException { String name = metadata.get(Metadata.RESOURCE_NAME_KEY); if (name != null && wanted.containsKey(name)) { FileOutputStream out = new FileOutputStream(wanted.get(name)); IOUtils.copy(stream, out); out.close(); } else { if (downstreamParser != null) { downstreamParser.parse(stream, handler, metadata, context); } } } | 19,095 |
0 | public static void main(String[] args) throws Exception { String linesep = System.getProperty("line.separator"); FileOutputStream fos = new FileOutputStream(new File("lib-licenses.txt")); fos.write(new String("JCP contains the following libraries. Please read this for comments on copyright etc." + linesep + linesep).getBytes()); fos.write(new String("Chemistry Development Kit, master version as of " + new Date().toString() + " (http://cdk.sf.net)" + linesep).getBytes()); fos.write(new String("Copyright 1997-2009 The CDK Development Team" + linesep).getBytes()); fos.write(new String("License: LGPL v2 (http://www.gnu.org/licenses/old-licenses/gpl-2.0.html)" + linesep).getBytes()); fos.write(new String("Download: https://sourceforge.net/projects/cdk/files/" + linesep).getBytes()); fos.write(new String("Source available at: http://sourceforge.net/scm/?type=git&group_id=20024" + linesep + linesep).getBytes()); File[] files = new File(args[0]).listFiles(new JarFileFilter()); for (int i = 0; i < files.length; i++) { if (new File(files[i].getPath() + ".meta").exists()) { Map<String, Map<String, String>> metaprops = readProperties(new File(files[i].getPath() + ".meta")); Iterator<String> itsect = metaprops.keySet().iterator(); while (itsect.hasNext()) { String section = itsect.next(); fos.write(new String(metaprops.get(section).get("Library") + " " + metaprops.get(section).get("Version") + " (" + metaprops.get(section).get("Homepage") + ")" + linesep).getBytes()); fos.write(new String("Copyright " + metaprops.get(section).get("Copyright") + linesep).getBytes()); fos.write(new String("License: " + metaprops.get(section).get("License") + " (" + metaprops.get(section).get("LicenseURL") + ")" + linesep).getBytes()); fos.write(new String("Download: " + metaprops.get(section).get("Download") + linesep).getBytes()); fos.write(new String("Source available at: " + metaprops.get(section).get("SourceCode") + linesep + linesep).getBytes()); } } if (new File(files[i].getPath() + ".extra").exists()) { fos.write(new String("The author says:" + linesep).getBytes()); FileInputStream in = new FileInputStream(new File(files[i].getPath() + ".extra")); int len; byte[] buf = new byte[1024]; while ((len = in.read(buf)) > 0) { fos.write(buf, 0, len); } } fos.write(linesep.getBytes()); } fos.close(); } | public String getMD5Str(String str) { MessageDigest messageDigest = null; String mdStr = null; try { messageDigest = MessageDigest.getInstance("MD5"); messageDigest.reset(); messageDigest.update(str.getBytes("UTF-8")); } catch (NoSuchAlgorithmException e) { System.out.println("NoSuchAlgorithmException caught!"); System.exit(-1); } catch (UnsupportedEncodingException e) { e.printStackTrace(); } byte[] byteArray = messageDigest.digest(); StringBuffer md5StrBuff = new StringBuffer(); for (int i = 0; i < byteArray.length; i++) { if (Integer.toHexString(0xFF & byteArray[i]).length() == 1) md5StrBuff.append("0").append(Integer.toHexString(0xFF & byteArray[i])); else md5StrBuff.append(Integer.toHexString(0xFF & byteArray[i])); } mdStr = md5StrBuff.toString(); return mdStr; } | 19,096 |
1 | public static String generate(String source) { byte[] SHA = new byte[20]; try { MessageDigest digest = MessageDigest.getInstance("SHA-1"); digest.update(source.getBytes()); SHA = digest.digest(); } catch (NoSuchAlgorithmException e) { System.out.println("NO SUCH ALGORITHM EXCEPTION: " + e.getMessage()); } CommunicationLogger.warning("SHA1 DIGEST: " + SHA); return SHA.toString(); } | public static String digest(String ha1, String ha2, String nonce) { try { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(getBytes(ha1, ISO_8859_1)); md.update((byte) ':'); md.update(getBytes(nonce, ISO_8859_1)); md.update((byte) ':'); md.update(getBytes(ha2, ISO_8859_1)); return toHexString(md.digest()); } catch (NoSuchAlgorithmException err) { throw new RuntimeException(err); } } | 19,097 |
1 | public static void request() { try { URL url = new URL("http://www.nseindia.com/marketinfo/companyinfo/companysearch.jsp?cons=ghcl§ion=7"); URLConnection conn = url.openConnection(); conn.setDoOutput(true); BufferedReader rd = new BufferedReader(new InputStreamReader(conn.getInputStream())); String line; while ((line = rd.readLine()) != null) { System.out.println(line); } rd.close(); } catch (Exception e) { e.printStackTrace(); } } | private static Vector<String> getIgnoreList() { try { URL url = DeclarationTranslation.class.getClassLoader().getResource("ignorelist"); BufferedReader bufferedReader = new BufferedReader(new InputStreamReader(url.openStream())); Vector<String> ret = new Vector<String>(); String line = null; while ((line = bufferedReader.readLine()) != null) { ret.add(line); } return ret; } catch (Exception e) { return null; } } | 19,098 |
1 | public void delUser(User user) throws SQLException, IOException, ClassNotFoundException { String dbUserID; String stockSymbol; Statement stmt = con.createStatement(); try { con.setAutoCommit(false); dbUserID = user.getUserID(); if (getUser(dbUserID) != null) { ResultSet rs1 = stmt.executeQuery("SELECT userID, symbol " + "FROM UserStocks WHERE userID = '" + dbUserID + "'"); while (rs1.next()) { try { stockSymbol = rs1.getString("symbol"); delUserStocks(dbUserID, stockSymbol); } catch (SQLException ex) { throw new SQLException("Deletion of user stock holding failed: " + ex.getMessage()); } } try { stmt.executeUpdate("DELETE FROM Users WHERE " + "userID = '" + dbUserID + "'"); } catch (SQLException ex) { throw new SQLException("User deletion failed: " + ex.getMessage()); } } else throw new IOException("User not found in database - cannot delete."); try { con.commit(); } catch (SQLException ex) { throw new SQLException("Transaction commit failed: " + ex.getMessage()); } } catch (SQLException ex) { try { con.rollback(); } catch (SQLException sqx) { throw new SQLException("Transaction failed then rollback failed: " + sqx.getMessage()); } throw new SQLException("Transaction failed; was rolled back: " + ex.getMessage()); } stmt.close(); } | public void testLocalUserAccountLocalRemoteRoles() throws SQLException { Statement st = null; Connection authedCon = null; try { saSt.executeUpdate("CREATE USER tlualrr PASSWORD 'wontuse'"); saSt.executeUpdate("GRANT role3 TO tlualrr"); saSt.executeUpdate("GRANT role4 TO tlualrr"); saSt.executeUpdate("SET DATABASE AUTHENTICATION FUNCTION EXTERNAL NAME " + "'CLASSPATH:" + getClass().getName() + ".twoRolesFn'"); try { authedCon = DriverManager.getConnection(jdbcUrl, "TLUALRR", "unusedPassword"); } catch (SQLException se) { fail("Access with 'twoRolesFn' failed"); } st = authedCon.createStatement(); assertFalse("Positive test #1 failed", AuthFunctionUtils.updateDoesThrow(st, "INSERT INTO t1 VALUES(1)")); assertFalse("Positive test #2 failed", AuthFunctionUtils.updateDoesThrow(st, "INSERT INTO t2 VALUES(2)")); assertTrue("Negative test #3 failed", AuthFunctionUtils.updateDoesThrow(st, "INSERT INTO t3 VALUES(3)")); assertTrue("Negative test #4 failed", AuthFunctionUtils.updateDoesThrow(st, "INSERT INTO t4 VALUES(4)")); assertEquals(twoRolesSet, AuthUtils.getEnabledRoles(authedCon)); } finally { if (st != null) try { st.close(); } catch (SQLException se) { logger.error("Close of Statement failed:" + se); } finally { st = null; } if (authedCon != null) try { authedCon.rollback(); authedCon.close(); } catch (SQLException se) { logger.error("Close of Authed Conn. failed:" + se); } finally { authedCon = null; } } } | 19,099 |
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