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Code Sample 1:
private boolean verifyPassword(String password, byte[] hash) { boolean returnValue = false; try { MessageDigest msgDigest = MessageDigest.getInstance("SHA-1"); msgDigest.update(password.getBytes("UTF-8")); byte[] digest = msgDigest.digest(); returnValue = Arrays.equals(hash, digest); } catch (UnsupportedEncodingException ex) { Logger.getLogger(AuthentificationState.class.getName()).log(Level.SEVERE, null, ex); } catch (NoSuchAlgorithmException ex) { Logger.getLogger(AuthentificationState.class.getName()).log(Level.SEVERE, null, ex); } return returnValue; }
Code Sample 2:
static String hash(String text) { try { StringBuffer plugins = new StringBuffer(); for (PlayPlugin plugin : Play.plugins) { plugins.append(plugin.getClass().getName()); } MessageDigest messageDigest = MessageDigest.getInstance("MD5"); messageDigest.reset(); messageDigest.update((Play.version + plugins.toString() + text).getBytes("utf-8")); byte[] digest = messageDigest.digest(); StringBuilder builder = new StringBuilder(); for (int i = 0; i < digest.length; ++i) { int value = digest[i]; if (value < 0) { value += 256; } builder.append(Integer.toHexString(value)); } return builder.toString(); } catch (Exception e) { throw new RuntimeException(e); } }
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Code Sample 1:
@SuppressWarnings("unchecked") protected void handleRequest(HttpServletRequest req, HttpServletResponse resp, boolean isPost) throws ServletException, IOException { HttpClient httpclient = WebReader.getHttpClient(); try { StringBuffer sb = new StringBuffer(); sb.append(targetServer); sb.append(req.getRequestURI()); if (req.getQueryString() != null) { sb.append("?" + req.getQueryString()); } HttpRequestBase targetRequest = null; if (isPost) { HttpPost post = new HttpPost(sb.toString()); Enumeration<String> paramNames = req.getParameterNames(); String paramName = null; List<NameValuePair> params = new ArrayList<NameValuePair>(); while (paramNames.hasMoreElements()) { paramName = paramNames.nextElement(); params.add(new BasicNameValuePair(paramName, req.getParameterValues(paramName)[0])); } post.setEntity(new UrlEncodedFormEntity(params, HTTP.UTF_8)); targetRequest = post; } else { System.out.println("GET"); HttpGet get = new HttpGet(sb.toString()); targetRequest = get; } HttpResponse targetResponse = httpclient.execute(targetRequest); HttpEntity entity = targetResponse.getEntity(); InputStream input = entity.getContent(); OutputStream output = resp.getOutputStream(); BufferedReader reader = new BufferedReader(new InputStreamReader(input)); BufferedWriter writer = new BufferedWriter(new OutputStreamWriter(output)); String line = reader.readLine(); while (line != null) { writer.write(line + "\n"); line = reader.readLine(); } reader.close(); writer.close(); } finally { WebReader.returnHttpClient(httpclient); } }
Code Sample 2:
public static final String getHash(int iterationNb, String password, String salt) { try { MessageDigest digest = MessageDigest.getInstance("SHA-1"); digest.reset(); digest.update(salt.getBytes("UTF-8")); byte[] input = digest.digest(password.getBytes("UTF-8")); for (int i = 0; i < iterationNb; i++) { digest.reset(); input = digest.digest(input); } String hashedValue = encoder.encode(input); LOG.finer("Creating hash '" + hashedValue + "' with iterationNb '" + iterationNb + "' and password '" + password + "' and salt '" + salt + "'!!"); return hashedValue; } catch (Exception ex) { ex.printStackTrace(); throw new RuntimeException("Problem in the getHash method.", ex); } }
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Code Sample 1:
public void run() { FileInputStream src; try { src = new FileInputStream(srcName); } catch (FileNotFoundException e) { e.printStackTrace(); return; } FileOutputStream dest; FileChannel srcC = src.getChannel(); ByteBuffer buf = ByteBuffer.allocateDirect(BUFFER_SIZE); try { int i = 1; int fileNo = 0; long maxByte = this.maxSize << 10; long nbByte = srcC.size(); long nbFile = (nbByte / maxByte) + 1; for (fileNo = 0; fileNo < nbFile; fileNo++) { long fileByte = 0; String destName = srcName + "_" + fileNo; dest = new FileOutputStream(destName); FileChannel destC = dest.getChannel(); while ((i > 0) && fileByte < maxByte) { i = srcC.read(buf); buf.flip(); fileByte += i; destC.write(buf); buf.compact(); } destC.close(); dest.close(); } } catch (IOException e1) { e1.printStackTrace(); return; } }
Code Sample 2:
public static void copyFile4(File srcFile, File destFile) throws IOException { InputStream in = new FileInputStream(srcFile); OutputStream out = new FileOutputStream(destFile); IOUtils.copy(in, out); in.close(); out.close(); }
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Code Sample 1:
private static boolean computeCustomerAverages(String completePath, String CustomerAveragesOutputFileName, String CustIndexFileName) { try { File inputFile = new File(completePath + fSep + "SmartGRAPE" + fSep + CustIndexFileName); FileChannel inC = new FileInputStream(inputFile).getChannel(); int filesize = (int) inC.size(); ByteBuffer mappedfile = inC.map(FileChannel.MapMode.READ_ONLY, 0, filesize); TIntObjectHashMap CustomerLimitsTHash = new TIntObjectHashMap(480189, 1); int startIndex, endIndex; TIntArrayList a; int custid; while (mappedfile.hasRemaining()) { custid = mappedfile.getInt(); startIndex = mappedfile.getInt(); endIndex = mappedfile.getInt(); a = new TIntArrayList(2); a.add(startIndex); a.add(endIndex); CustomerLimitsTHash.put(custid, a); } inC.close(); mappedfile = null; System.out.println("Loaded customer index hash"); File outFile = new File(completePath + fSep + "SmartGRAPE" + fSep + CustomerAveragesOutputFileName); FileChannel outC = new FileOutputStream(outFile, true).getChannel(); int totalCusts = CustomerLimitsTHash.size(); File movieMMAPDATAFile = new File(completePath + fSep + "SmartGRAPE" + fSep + "MovieRatingBinaryFile.txt"); inC = new FileInputStream(movieMMAPDATAFile).getChannel(); int[] itr = CustomerLimitsTHash.keys(); startIndex = 0; endIndex = 0; a = null; ByteBuffer buf; for (int i = 0; i < totalCusts; i++) { int currentCust = itr[i]; a = (TIntArrayList) CustomerLimitsTHash.get(currentCust); startIndex = a.get(0); endIndex = a.get(1); if (endIndex > startIndex) { buf = ByteBuffer.allocate((endIndex - startIndex + 1) * 3); inC.read(buf, (startIndex - 1) * 3); } else { buf = ByteBuffer.allocate(3); inC.read(buf, (startIndex - 1) * 3); } buf.flip(); int bufsize = buf.capacity() / 3; float sum = 0; for (int q = 0; q < bufsize; q++) { buf.getShort(); sum += buf.get(); } ByteBuffer outbuf = ByteBuffer.allocate(8); outbuf.putInt(currentCust); outbuf.putFloat(sum / bufsize); outbuf.flip(); outC.write(outbuf); buf.clear(); buf = null; a.clear(); a = null; } inC.close(); outC.close(); return true; } catch (Exception e) { e.printStackTrace(); return false; } }
Code Sample 2:
protected void unZip() throws PersistenceException { boolean newZip = false; try { if (null == backup) { mode = (String) context.get(Context.MODE); if (null == mode) mode = Context.MODE_NAME_RESTORE; backupDirectory = (File) context.get(Context.BACKUP_DIRECTORY); logger.debug("Got backup directory {" + backupDirectory.getAbsolutePath() + "}"); if (!backupDirectory.exists() && mode.equals(Context.MODE_NAME_BACKUP)) { newZip = true; backupDirectory.mkdirs(); } else if (!backupDirectory.exists()) { throw new PersistenceException("Backup directory {" + backupDirectory.getAbsolutePath() + "} does not exist."); } backup = new File(backupDirectory + "/" + getBackupName() + ".zip"); logger.debug("Got zip file {" + backup.getAbsolutePath() + "}"); } File _explodedDirectory = File.createTempFile("exploded-" + backup.getName() + "-", ".zip"); _explodedDirectory.mkdirs(); _explodedDirectory.delete(); backupDirectory = new File(_explodedDirectory.getParentFile(), _explodedDirectory.getName()); backupDirectory.mkdirs(); logger.debug("Created exploded directory {" + backupDirectory.getAbsolutePath() + "}"); if (!backup.exists() && mode.equals(Context.MODE_NAME_BACKUP)) { newZip = true; backup.createNewFile(); } else if (!backup.exists()) { throw new PersistenceException("Backup file {" + backup.getAbsolutePath() + "} does not exist."); } if (newZip) return; ZipFile zip = new ZipFile(backup); Enumeration zipFileEntries = zip.entries(); while (zipFileEntries.hasMoreElements()) { ZipEntry entry = (ZipEntry) zipFileEntries.nextElement(); String currentEntry = entry.getName(); logger.debug("Inflating: " + entry); File destFile = new File(backupDirectory, currentEntry); File destinationParent = destFile.getParentFile(); destinationParent.mkdirs(); if (!entry.isDirectory()) { InputStream in = null; OutputStream out = null; try { in = zip.getInputStream(entry); out = new FileOutputStream(destFile); IOUtils.copy(in, out); } finally { if (null != out) out.close(); if (null != in) in.close(); } } } } catch (IOException e) { logger.error("Unable to unzip {" + backup + "}", e); throw new PersistenceException(e); } }
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Code Sample 1:
public static synchronized String getSequenceNumber(String SequenceName) { String result = ""; Connection conn = null; Statement ps = null; ResultSet rs = null; try { conn = TPCW_Database.getConnection(); conn.setAutoCommit(false); String sql = "select num from sequence where name='" + SequenceName + "'"; ps = conn.createStatement(ResultSet.TYPE_SCROLL_INSENSITIVE, ResultSet.CONCUR_UPDATABLE); rs = ps.executeQuery(sql); long num = 0; while (rs.next()) { num = rs.getLong(1); result = new Long(num).toString(); } num++; sql = "update sequence set num=" + num + " where name='" + SequenceName + "'"; int res = ps.executeUpdate(sql); if (res == 1) { conn.commit(); } else conn.rollback(); } catch (Exception e) { System.out.println("Error Happens when trying to obtain the senquence number"); e.printStackTrace(); } finally { try { if (conn != null) conn.close(); if (rs != null) rs.close(); if (ps != null) ps.close(); } catch (SQLException se) { se.printStackTrace(); } } return result; }
Code Sample 2:
protected void channelConnected() throws IOException { MessageDigest md = null; String digest = ""; try { String userid = nateon.getUserId(); if (userid.endsWith("@nate.com")) userid = userid.substring(0, userid.lastIndexOf('@')); md = MessageDigest.getInstance("MD5"); md.update(nateon.getPassword().getBytes()); md.update(userid.getBytes()); byte[] bData = md.digest(); StringBuilder sb = new StringBuilder(); for (byte b : bData) { int v = (int) b; v = v < 0 ? v + 0x100 : v; String s = Integer.toHexString(v); if (s.length() == 1) sb.append('0'); sb.append(s); } digest = sb.toString(); } catch (Exception e) { e.printStackTrace(); } NateOnMessage out = new NateOnMessage("LSIN"); out.add(nateon.getUserId()).add(digest).add("MD5").add("3.615"); out.setCallback("processAuth"); writeMessage(out); }
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Code Sample 1:
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(); } }
Code Sample 2:
public static void copyTo(File src, File dest) throws IOException { if (src.equals(dest)) throw new IOException("copyTo src==dest file"); FileOutputStream fout = new FileOutputStream(dest); InputStream in = new FileInputStream(src); IOUtils.copyTo(in, fout); fout.flush(); fout.close(); in.close(); }
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Code Sample 1:
private static void copyFile(File source, File destination) throws IOException, SecurityException { if (!destination.exists()) destination.createNewFile(); FileChannel sourceChannel = null; FileChannel destinationChannel = null; try { sourceChannel = new FileInputStream(source).getChannel(); destinationChannel = new FileOutputStream(destination).getChannel(); long count = 0; long size = sourceChannel.size(); while ((count += destinationChannel.transferFrom(sourceChannel, 0, size - count)) < size) ; } finally { if (sourceChannel != null) sourceChannel.close(); if (destinationChannel != null) destinationChannel.close(); } }
Code Sample 2:
public void process(String src, String dest) { try { KanjiDAO kanjiDAO = KanjiDAOFactory.getDAO(); MorphologicalAnalyzer mecab = MorphologicalAnalyzer.getInstance(); if (mecab.isActive()) { BufferedReader br = new BufferedReader(new InputStreamReader(new FileInputStream(src), "UTF8")); BufferedWriter bw = new BufferedWriter(new OutputStreamWriter(new FileOutputStream(dest), "UTF8")); String line; bw.write("// // // \r\n$title=\r\n$singer=\r\n$id=\r\n\r\n + _______ // 0 0 0 0 0 0 0\r\n\r\n"); while ((line = br.readLine()) != null) { System.out.println(line); String segment[] = line.split("//"); String japanese = null; String english = null; if (segment.length > 1) english = segment[1].trim(); if (segment.length > 0) japanese = segment[0].trim().replaceAll(" ", "_"); boolean first = true; if (japanese != null) { ArrayList<ExtractedWord> wordList = mecab.extractWord(japanese); Iterator<ExtractedWord> iter = wordList.iterator(); while (iter.hasNext()) { ExtractedWord word = iter.next(); if (first) { first = false; bw.write("*"); } else bw.write(" "); if (word.isParticle) bw.write("- "); else bw.write("+ "); if (!word.original.equals(word.reading)) { System.out.println("--> " + JapaneseString.toRomaji(word.original) + " / " + JapaneseString.toRomaji(word.reading)); KReading[] kr = ReadingAnalyzer.analyzeReadingStub(word.original, word.reading, kanjiDAO); if (kr != null) { for (int i = 0; i < kr.length; i++) { if (i > 0) bw.write(" "); bw.write(kr[i].kanji); if (kr[i].type != KReading.KANA) { bw.write("|"); bw.write(kr[i].reading); } } } else { bw.write(word.original); bw.write("|"); bw.write(word.reading); } } else { bw.write(word.original); } bw.write(" // \r\n"); } if (english != null) { bw.write(english); bw.write("\r\n"); } bw.write("\r\n"); } } br.close(); bw.close(); } else { System.out.println("Mecab couldn't be initialized"); } } catch (Exception e) { e.printStackTrace(); } }
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Code Sample 1:
private void serializeWithClass(Class theClass, int count, String comment) { for (int c = 0; c < 10; c++) { if (c == 9) { beginAction(1, "persistence write/read", count, comment); } String tempFile = ".tmp.archive"; SerializeClassInterface theInstance = null; try { theInstance = (SerializeClassInterface) theClass.newInstance(); } catch (Exception e) { e.printStackTrace(); } if (theInstance == null) { System.err.println("error: Couldn't initialize class to " + "be serialized!"); return; } reset(); for (int i = 0; i < count; i++) { try { FileOutputStream fout = new FileOutputStream(tempFile); BufferedOutputStream bout = new BufferedOutputStream(fout); ObjectOutputStream oout = new ObjectOutputStream(bout); oout.writeObject(theInstance); oout.flush(); oout.close(); } catch (IOException ioe) { System.err.println("serializing: " + tempFile + ":" + ioe.toString()); } try { FileInputStream fin = new FileInputStream(tempFile); BufferedInputStream bin = new BufferedInputStream(fin); ObjectInputStream oin = new ObjectInputStream(bin); theInstance = (SerializeClassInterface) oin.readObject(); oin.close(); } catch (Exception e) { System.err.println("deserializing: " + tempFile + ":" + e.toString()); break; } proceed(); } reset(); if (c == 9) { endAction(); } } }
Code Sample 2:
public File createFileFromClasspathResource(String resourceUrl) throws IOException { File fichierTest = File.createTempFile("xmlFieldTestFile", ""); FileOutputStream fos = new FileOutputStream(fichierTest); InputStream is = XmlFieldDomSelectorTest.class.getResourceAsStream(resourceUrl); IOUtils.copy(is, fos); is.close(); fos.close(); return fichierTest; }
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Code Sample 1:
public ProgramMessageSymbol addProgramMessageSymbol(int programID, String name, byte[] bytecode) throws AdaptationException { ProgramMessageSymbol programMessageSymbol = null; Connection connection = null; PreparedStatement preparedStatement = null; Statement statement = null; ResultSet resultSet = null; InputStream stream = new ByteArrayInputStream(bytecode); try { String query = "INSERT INTO ProgramMessageSymbols(programID, name, " + "bytecode) VALUES ( ?, ?, ? )"; connection = DriverManager.getConnection(CONN_STR); preparedStatement = connection.prepareStatement(query); preparedStatement.setInt(1, programID); preparedStatement.setString(2, name); preparedStatement.setBinaryStream(3, stream, bytecode.length); log.info("INSERT INTO ProgramMessageSymbols(programID, name, " + "bytecode) VALUES (" + programID + ", '" + name + "', " + "<bytecode>)"); preparedStatement.executeUpdate(); statement = connection.createStatement(); query = "SELECT * FROM ProgramMessageSymbols WHERE " + "programID = " + programID + " AND " + "name = '" + name + "'"; resultSet = statement.executeQuery(query); if (!resultSet.next()) { connection.rollback(); String msg = "Attempt to add program message symbol failed."; log.error(msg); ; throw new AdaptationException(msg); } programMessageSymbol = getProgramMessageSymbol(resultSet); connection.commit(); } catch (SQLException ex) { try { connection.rollback(); } catch (Exception e) { } String msg = "SQLException in addProgramMessageSymbol"; log.error(msg, ex); throw new AdaptationException(msg, ex); } finally { try { resultSet.close(); } catch (Exception ex) { } try { preparedStatement.close(); } catch (Exception ex) { } try { statement.close(); } catch (Exception ex) { } try { connection.close(); } catch (Exception ex) { } } return programMessageSymbol; }
Code Sample 2:
public static boolean copyFile(File soureFile, File destFile) { boolean copySuccess = false; if (soureFile != null && destFile != null && soureFile.exists()) { try { new File(destFile.getParent()).mkdirs(); BufferedOutputStream out = new BufferedOutputStream(new FileOutputStream(destFile)); BufferedInputStream in = new BufferedInputStream(new FileInputStream(soureFile)); for (int currentByte = in.read(); currentByte != -1; currentByte = in.read()) out.write(currentByte); in.close(); out.close(); copySuccess = true; } catch (Exception e) { copySuccess = false; } } return copySuccess; }
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Code Sample 1:
public void load(boolean isOrdered) throws ResourceInstantiationException { try { if (null == url) { throw new ResourceInstantiationException("URL not specified (null)."); } BufferedReader listReader; listReader = new BomStrippingInputStreamReader((url).openStream(), encoding); String line; int linenr = 0; while (null != (line = listReader.readLine())) { linenr++; GazetteerNode node = null; try { node = new GazetteerNode(line, separator, isOrdered); } catch (Exception ex) { throw new GateRuntimeException("Could not read gazetteer entry " + linenr + " from URL " + getURL() + ": " + ex.getMessage(), ex); } entries.add(new GazetteerNode(line, separator, isOrdered)); } listReader.close(); } catch (Exception x) { throw new ResourceInstantiationException(x.getClass() + ":" + x.getMessage()); } isModified = false; }
Code Sample 2:
public void testClickToCallOutDirection() throws Exception { init(); SipCall[] receiverCalls = new SipCall[receiversCount]; receiverCalls[0] = sipPhoneReceivers[0].createSipCall(); receiverCalls[1] = sipPhoneReceivers[1].createSipCall(); receiverCalls[0].listenForIncomingCall(); receiverCalls[1].listenForIncomingCall(); logger.info("Trying to reach url : " + CLICK2DIAL_URL + CLICK2DIAL_PARAMS); URL url = new URL(CLICK2DIAL_URL + CLICK2DIAL_PARAMS); InputStream in = url.openConnection().getInputStream(); byte[] buffer = new byte[10000]; int len = in.read(buffer); String httpResponse = ""; for (int q = 0; q < len; q++) httpResponse += (char) buffer[q]; logger.info("Received the follwing HTTP response: " + httpResponse); receiverCalls[0].waitForIncomingCall(timeout); assertTrue(receiverCalls[0].sendIncomingCallResponse(Response.RINGING, "Ringing", 0)); assertTrue(receiverCalls[0].sendIncomingCallResponse(Response.OK, "OK", 0)); receiverCalls[1].waitForIncomingCall(timeout); assertTrue(receiverCalls[1].sendIncomingCallResponse(Response.RINGING, "Ringing", 0)); assertTrue(receiverCalls[1].sendIncomingCallResponse(Response.OK, "OK", 0)); assertTrue(receiverCalls[1].waitForAck(timeout)); assertTrue(receiverCalls[0].waitForAck(timeout)); assertTrue(receiverCalls[0].disconnect()); assertTrue(receiverCalls[1].waitForDisconnect(timeout)); assertTrue(receiverCalls[1].respondToDisconnect()); }
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Code Sample 1:
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); } } }
Code Sample 2:
public void actionPerformed(ActionEvent e) { final File inputFile = KeyboardHero.midiFile(); try { if (inputFile == null) return; final File dir = (new File(Util.DATA_FOLDER + MidiSong.MIDI_FILES_DIR)); if (dir.exists()) { if (!dir.isDirectory()) { Util.error(Util.getMsg("Err_MidiFilesDirNotDirectory"), dir.getParent()); return; } } else if (!dir.mkdirs()) { Util.error(Util.getMsg("Err_CouldntMkDir"), dir.getParent()); return; } File outputFile = new File(dir.getPath() + File.separator + inputFile.getName()); if (!outputFile.exists() || KeyboardHero.confirm("Que_FileExistsOverwrite")) { final FileChannel inChannel = new FileInputStream(inputFile).getChannel(); inChannel.transferTo(0, inChannel.size(), new FileOutputStream(outputFile).getChannel()); } } catch (Exception ex) { Util.getMsg(Util.getMsg("Err_CouldntImportSong"), ex.toString()); } SongSelector.refresh(); }
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Code Sample 1:
private void appendAndDelete(FileOutputStream outstream, String file) throws FileNotFoundException, IOException { FileInputStream input = new FileInputStream(file); byte[] buffer = new byte[65536]; int l; while ((l = input.read(buffer)) != -1) outstream.write(buffer, 0, l); input.close(); new File(file).delete(); }
Code Sample 2:
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) { logger.error(Logger.SECURITY_FAILURE, "Problem decoding file to file", exc); } finally { try { in.close(); } catch (Exception exc) { } try { out.close(); } catch (Exception exc) { } } return success; }
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Code Sample 1:
public boolean copyFile(File source, File dest) { try { FileReader in = new FileReader(source); FileWriter out = new FileWriter(dest); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); return true; } catch (Exception e) { return false; } }
Code Sample 2:
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; }
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Code Sample 1:
public WebResponse getResponse(WebRequest webRequest, String charset) throws IOException { initHttpClient(); switch(webRequest.getRequestMethod()) { case GET: httpRequest.set(populateHttpRequestBaseMethod(webRequest, new HttpGet(webRequest.getUrl()))); break; case HEAD: httpRequest.set(populateHttpRequestBaseMethod(webRequest, new HttpHead(webRequest.getUrl()))); break; case OPTIONS: httpRequest.set(populateHttpRequestBaseMethod(webRequest, new HttpOptions(webRequest.getUrl()))); break; case TRACE: httpRequest.set(populateHttpRequestBaseMethod(webRequest, new HttpTrace(webRequest.getUrl()))); break; case DELETE: httpRequest.set(populateHttpRequestBaseMethod(webRequest, new HttpDelete(webRequest.getUrl()))); break; case POST: httpRequest.set(populateHttpEntityEnclosingRequestBaseMethod(webRequest, new HttpPost(webRequest.getUrl()))); break; case PUT: httpRequest.set(populateHttpEntityEnclosingRequestBaseMethod(webRequest, new HttpPut(webRequest.getUrl()))); break; default: throw new RuntimeException("Method not yet supported: " + webRequest.getRequestMethod()); } WebResponse resp; HttpResponse response = executeMethod(httpRequest.get()); if (response == null) { throw new IOException("LIGHTHTTP. An empty response received from server. Possible reason: host is offline"); } resp = processResponse(response, httpRequest.get(), charset); httpRequest.set(null); return resp; }
Code Sample 2:
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; }
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Code Sample 1:
public static final String encryptSHA(String decrypted) { try { MessageDigest sha = MessageDigest.getInstance("SHA-1"); sha.reset(); sha.update(decrypted.getBytes()); byte hash[] = sha.digest(); sha.reset(); return hashToHex(hash); } catch (NoSuchAlgorithmException _ex) { return null; } }
Code Sample 2:
private void getRandomGUID(boolean secure) { MessageDigest md5 = null; StringBuffer sbValueBeforeMD5 = new StringBuffer(); try { md5 = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { System.out.println("Error: " + e); } try { long time = System.currentTimeMillis(); long rand = 0; if (secure) { rand = mySecureRand.nextLong(); } else { rand = myRand.nextLong(); } sbValueBeforeMD5.append(s_id); sbValueBeforeMD5.append(":"); sbValueBeforeMD5.append(Long.toString(time)); sbValueBeforeMD5.append(":"); sbValueBeforeMD5.append(Long.toString(rand)); valueBeforeMD5 = sbValueBeforeMD5.toString(); md5.update(valueBeforeMD5.getBytes()); byte[] array = md5.digest(); StringBuffer sb = new StringBuffer(); for (int j = 0; j < array.length; ++j) { int b = array[j] & 0xFF; if (b < 0x10) sb.append('0'); sb.append(Integer.toHexString(b)); } valueAfterMD5 = sb.toString(); } catch (Exception e) { System.out.println("Error:" + e); } }
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Code Sample 1:
public static void BubbleSortDouble1(double[] num) { boolean flag = true; // set flag to true to begin first pass double temp; // holding variable while (flag) { flag = false; // set flag to false awaiting a possible swap for (int j = 0; j < num.length - 1; j++) { if (num[j] > num[j + 1]) // change to > for ascending sort { temp = num[j]; // swap elements num[j] = num[j + 1]; num[j + 1] = temp; flag = true; // shows a swap occurred } } } }
Code Sample 2:
public XmldbURI createFile(String newName, InputStream is, Long length, String contentType) throws IOException, PermissionDeniedException, CollectionDoesNotExistException { if (LOG.isDebugEnabled()) LOG.debug("Create '" + newName + "' in '" + xmldbUri + "'"); XmldbURI newNameUri = XmldbURI.create(newName); MimeType mime = MimeTable.getInstance().getContentTypeFor(newName); if (mime == null) { mime = MimeType.BINARY_TYPE; } DBBroker broker = null; Collection collection = null; BufferedInputStream bis = new BufferedInputStream(is); VirtualTempFile vtf = new VirtualTempFile(); BufferedOutputStream bos = new BufferedOutputStream(vtf); IOUtils.copy(bis, bos); bis.close(); bos.close(); vtf.close(); if (mime.isXMLType() && vtf.length() == 0L) { if (LOG.isDebugEnabled()) LOG.debug("Creating dummy XML file for null resource lock '" + newNameUri + "'"); vtf = new VirtualTempFile(); IOUtils.write("<null_resource/>", vtf); vtf.close(); } TransactionManager transact = brokerPool.getTransactionManager(); Txn txn = transact.beginTransaction(); try { broker = brokerPool.get(subject); collection = broker.openCollection(xmldbUri, Lock.WRITE_LOCK); if (collection == null) { LOG.debug("Collection " + xmldbUri + " does not exist"); transact.abort(txn); throw new CollectionDoesNotExistException(xmldbUri + ""); } if (mime.isXMLType()) { if (LOG.isDebugEnabled()) LOG.debug("Inserting XML document '" + mime.getName() + "'"); VirtualTempFileInputSource vtfis = new VirtualTempFileInputSource(vtf); IndexInfo info = collection.validateXMLResource(txn, broker, newNameUri, vtfis); DocumentImpl doc = info.getDocument(); doc.getMetadata().setMimeType(mime.getName()); collection.store(txn, broker, info, vtfis, false); } else { if (LOG.isDebugEnabled()) LOG.debug("Inserting BINARY document '" + mime.getName() + "'"); InputStream fis = vtf.getByteStream(); bis = new BufferedInputStream(fis); DocumentImpl doc = collection.addBinaryResource(txn, broker, newNameUri, bis, mime.getName(), length.longValue()); bis.close(); } transact.commit(txn); if (LOG.isDebugEnabled()) LOG.debug("Document created sucessfully"); } catch (EXistException e) { LOG.error(e); transact.abort(txn); throw new IOException(e); } catch (TriggerException e) { LOG.error(e); transact.abort(txn); throw new IOException(e); } catch (SAXException e) { LOG.error(e); transact.abort(txn); throw new IOException(e); } catch (LockException e) { LOG.error(e); transact.abort(txn); throw new PermissionDeniedException(xmldbUri + ""); } catch (IOException e) { LOG.error(e); transact.abort(txn); throw e; } catch (PermissionDeniedException e) { LOG.error(e); transact.abort(txn); throw e; } finally { if (vtf != null) { vtf.delete(); } if (collection != null) { collection.release(Lock.WRITE_LOCK); } brokerPool.release(broker); if (LOG.isDebugEnabled()) LOG.debug("Finished creation"); } XmldbURI newResource = xmldbUri.append(newName); return newResource; }
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Code Sample 1:
@Override public ResourceBundle newBundle(String baseName, Locale locale, String format, ClassLoader loader, boolean reload) throws IllegalAccessException, InstantiationException, IOException { if ((baseName == null) || (locale == null) || (format == null) || (loader == null)) { throw new NullPointerException(); } ResourceBundle bundle = null; if (format.equals(XML)) { String bundleName = toBundleName(baseName, locale); String resourceName = toResourceName(bundleName, format); URL url = loader.getResource(resourceName); if (url != null) { URLConnection connection = url.openConnection(); if (connection != null) { if (reload) { connection.setUseCaches(false); } InputStream stream = connection.getInputStream(); if (stream != null) { BufferedInputStream bis = new BufferedInputStream(stream); bundle = new XMLResourceBundle(bis); bis.close(); } } } } return bundle; }
Code Sample 2:
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; }
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Code Sample 1:
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); } }
Code Sample 2:
private File writeResourceToFile(String resource) throws IOException { File tmp = File.createTempFile("zfppt" + resource, null); InputStream res = Thread.currentThread().getContextClassLoader().getResourceAsStream(resource); OutputStream out = new FileOutputStream(tmp); IOUtils.copy(res, out); out.close(); return tmp; }
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Code Sample 1:
public void performOk(final IProject project, final TomcatPropertyPage page) { page.setPropertyValue("tomcat.jdbc.driver", c_drivers.getText()); page.setPropertyValue("tomcat.jdbc.url", url.getText()); page.setPropertyValue("tomcat.jdbc.user", username.getText()); page.setPropertyValue("tomcat.jdbc.password", password.getText()); File lib = new File(page.tomcatHome.getText(), "lib"); if (!lib.exists()) { lib = new File(new File(page.tomcatHome.getText(), "common"), "lib"); if (!lib.exists()) { Logger.log(Logger.ERROR, "Not properly location of Tomcat Home at :: " + lib); throw new IllegalStateException("Not properly location of Tomcat Home"); } } final File conf = new File(page.tomcatHome.getText(), "conf/Catalina/localhost"); if (!conf.exists()) { final boolean create = NexOpenUIActivator.getDefault().getTomcatConfProperty(); if (create) { if (Logger.getLog().isDebugEnabled()) { Logger.getLog().debug("Create directory " + conf); } try { conf.mkdirs(); } catch (final SecurityException se) { Logger.getLog().error("Retrieved a Security exception creating " + conf, se); Logger.log(Logger.ERROR, "Not created " + conf + " directory. Not enough privilegies. Message :: " + se.getMessage()); } } } String str_driverLibrary = LIBRARIES.get(c_drivers.getText()); if ("<mysql_driver>".equals(str_driverLibrary)) { str_driverLibrary = NexOpenUIActivator.getDefault().getMySQLDriver(); } final File driverLibrary = new File(lib, str_driverLibrary); if (!driverLibrary.exists()) { InputStream driver = null; FileOutputStream fos = null; try { driver = AppServerPropertyPage.toInputStream(new Path("jdbc/" + str_driverLibrary)); fos = new FileOutputStream(driverLibrary); IOUtils.copy(driver, fos); } catch (IOException e) { Logger.log(Logger.ERROR, "Could not copy the driver jar file to Tomcat", e); } finally { try { if (driver != null) { driver.close(); driver = null; } if (fos != null) { fos.flush(); fos.close(); fos = null; } } catch (IOException e) { } } } page.processTomcatCfg(c_drivers.getText(), url.getText(), username.getText(), password.getText()); }
Code Sample 2:
public Object process(Atom oAtm) throws IOException { File oFile; FileReader oFileRead; String sPathHTML; char cBuffer[]; Object oReplaced; final String sSep = System.getProperty("file.separator"); if (DebugFile.trace) { DebugFile.writeln("Begin FileDumper.process([Job:" + getStringNull(DB.gu_job, "") + ", Atom:" + String.valueOf(oAtm.getInt(DB.pg_atom)) + "])"); DebugFile.incIdent(); } if (bHasReplacements) { sPathHTML = getProperty("workareasput"); if (!sPathHTML.endsWith(sSep)) sPathHTML += sSep; sPathHTML += getParameter("gu_workarea") + sSep + "apps" + sSep + "Mailwire" + sSep + "html" + sSep + getParameter("gu_pageset") + sSep; sPathHTML += getParameter("nm_pageset").replace(' ', '_') + ".html"; if (DebugFile.trace) DebugFile.writeln("PathHTML = " + sPathHTML); oReplaced = oReplacer.replace(sPathHTML, oAtm.getItemMap()); bHasReplacements = (oReplacer.lastReplacements() > 0); } else { oReplaced = null; if (null != oFileStr) oReplaced = oFileStr.get(); if (null == oReplaced) { sPathHTML = getProperty("workareasput"); if (!sPathHTML.endsWith(sSep)) sPathHTML += sSep; sPathHTML += getParameter("gu_workarea") + sSep + "apps" + sSep + "Mailwire" + sSep + "html" + sSep + getParameter("gu_pageset") + sSep + getParameter("nm_pageset").replace(' ', '_') + ".html"; if (DebugFile.trace) DebugFile.writeln("PathHTML = " + sPathHTML); oFile = new File(sPathHTML); cBuffer = new char[new Long(oFile.length()).intValue()]; oFileRead = new FileReader(oFile); oFileRead.read(cBuffer); oFileRead.close(); if (DebugFile.trace) DebugFile.writeln(String.valueOf(cBuffer.length) + " characters readed"); oReplaced = new String(cBuffer); oFileStr = new SoftReference(oReplaced); } } String sPathJobDir = getProperty("storage"); if (!sPathJobDir.endsWith(sSep)) sPathJobDir += sSep; sPathJobDir += "jobs" + sSep + getParameter("gu_workarea") + sSep + getString(DB.gu_job) + sSep; FileWriter oFileWrite = new FileWriter(sPathJobDir + getString(DB.gu_job) + "_" + String.valueOf(oAtm.getInt(DB.pg_atom)) + ".html", true); oFileWrite.write((String) oReplaced); oFileWrite.close(); iPendingAtoms--; if (DebugFile.trace) { DebugFile.writeln("End FileDumper.process([Job:" + getStringNull(DB.gu_job, "") + ", Atom:" + String.valueOf(oAtm.getInt(DB.pg_atom)) + "])"); DebugFile.decIdent(); } return oReplaced; }
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Code Sample 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!"); }
Code Sample 2:
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; }
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Code Sample 1:
private static void zip(ZipArchiveOutputStream zos, File efile, String base) throws IOException { if (efile.isDirectory()) { File[] lf = efile.listFiles(); base = base + File.separator + efile.getName(); for (File file : lf) { zip(zos, file, base); } } else { ZipArchiveEntry entry = new ZipArchiveEntry(efile, base + File.separator + efile.getName()); zos.setEncoding("utf-8"); zos.putArchiveEntry(entry); InputStream is = new FileInputStream(efile); IOUtils.copy(is, zos); is.close(); zos.closeArchiveEntry(); } }
Code Sample 2:
public void filter(File source, File destination, MNamespace mNamespace) throws Exception { BufferedReader reader = new BufferedReader(new FileReader(source)); BufferedWriter writer = new BufferedWriter(new FileWriter(destination)); int line = 0; int column = 0; Stack parseStateStack = new Stack(); parseStateStack.push(new ParseState(mNamespace)); for (Iterator i = codePieces.iterator(); i.hasNext(); ) { NamedCodePiece cp = (NamedCodePiece) i.next(); while (line < cp.getStartLine()) { line++; column = 0; writer.write(reader.readLine()); writer.newLine(); } while (column < cp.getStartPosition()) { writer.write(reader.read()); column++; } cp.write(writer, parseStateStack, column); while (line < cp.getEndLine()) { line++; column = 0; reader.readLine(); } while (column < cp.getEndPosition()) { column++; reader.read(); } } String data; while ((data = reader.readLine()) != null) { writer.write(data); writer.newLine(); } reader.close(); writer.close(); }
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Code Sample 1:
public List<String> addLine(String username, String URL, int page) { List<String> rss = new ArrayList<String>(); try { URL url = new URL(URL + page); BufferedReader reader = new BufferedReader(new InputStreamReader(url.openStream())); String line; System.out.println(reader.readLine()); while ((line = reader.readLine()) != null) { String string = "<text>"; String string1 = "</text>"; if (line.contains(string) && !line.contains("@") && !line.contains("http")) { String tweet = line.replace(string, "").replace(string1, "").replace("'", "").trim(); final Tweets tweets = new Tweets(username, tweet, page, false); int save = tweets.save(); tweets.setId((long) save); Thread thread = new Thread(new Runnable() { @Override public void run() { Main.addRow(tweets); } }); thread.start(); System.out.println(tweet); } } reader.close(); } catch (MalformedURLException e) { Log.put(e.toString()); System.out.println(e.toString()); } catch (IOException e) { Log.put(e.toString()); System.out.println(e.toString()); } catch (Exception e) { Log.put(e.toString()); System.out.println(e.toString()); } return rss; }
Code Sample 2:
public static String do_checksum(String data) throws NoSuchAlgorithmException { MessageDigest md5 = MessageDigest.getInstance("MD5"); StringBuffer strbuf = new StringBuffer(); md5.update(data.getBytes(), 0, data.length()); byte[] digest = md5.digest(); for (int i = 0; i < digest.length; i++) { strbuf.append(toHexString(digest[i])); } return strbuf.toString(); }
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Code Sample 1:
private static void userAuth(String challenge) throws IOException { try { MessageDigest md = MessageDigest.getInstance("BrokenMD4"); String passwd = null; if (System.getProperty("jarsync.password.gui") != null) { JPasswordField pass = new JPasswordField(); JPanel panel = new JPanel(new GridLayout(2, 1)); panel.add(new JLabel("Password:")); panel.add(pass); JOptionPane.showMessageDialog(null, panel, remoteUser + '@' + remoteHost + "'s Password", JOptionPane.QUESTION_MESSAGE); passwd = new String(pass.getPassword()); } else { System.out.print(remoteUser + '@' + remoteHost + "'s password: "); passwd = Util.readLine(System.in); System.out.println(); } md.update(new byte[4]); md.update(passwd.getBytes("US-ASCII")); md.update(challenge.getBytes("US-ASCII")); byte[] response = md.digest(); Util.writeASCII(out, remoteUser + " " + Util.base64(response) + '\n'); out.flush(); } catch (NoSuchAlgorithmException nsae) { throw new IOException("could not create message digest."); } }
Code Sample 2:
public static void copyAssetFile(Context ctx, String srcFileName, String targetFilePath) { AssetManager assetManager = ctx.getAssets(); try { InputStream is = assetManager.open(srcFileName); File out = new File(targetFilePath); if (!out.exists()) { out.getParentFile().mkdirs(); out.createNewFile(); } OutputStream os = new FileOutputStream(out); IOUtils.copy(is, os); is.close(); os.close(); } catch (IOException e) { AIOUtils.log("error when copyAssetFile", e); } }
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Code Sample 1:
@Override public CheckAvailabilityResult execute(final CheckAvailabilityAction action, final ExecutionContext context) throws ActionException { if (LOGGER.isDebugEnabled()) { String serverName = null; if (action.getServerId() == CheckAvailability.FEDORA_ID) { serverName = "fedora"; } else if (action.getServerId() == CheckAvailability.KRAMERIUS_ID) { serverName = "kramerius"; } LOGGER.debug("Processing action: CheckAvailability: " + serverName); } ServerUtils.checkExpiredSession(httpSessionProvider); boolean status = true; String url = null; String usr = ""; String pass = ""; if (action.getServerId() == CheckAvailability.FEDORA_ID) { url = configuration.getFedoraHost(); usr = configuration.getFedoraLogin(); pass = configuration.getFedoraPassword(); } else if (action.getServerId() == CheckAvailability.KRAMERIUS_ID) { url = configuration.getKrameriusHost() + SOME_STATIC_KRAMERIUS_PAGE; } else { throw new ActionException("Unknown server id"); } try { URLConnection con = RESTHelper.openConnection(url, usr, pass, false); if (con instanceof HttpURLConnection) { HttpURLConnection httpConnection = (HttpURLConnection) con; int resp = httpConnection.getResponseCode(); if (resp < 200 || resp >= 308) { status = false; LOGGER.info("Server " + url + " answered with HTTP code " + httpConnection.getResponseCode()); } } else { status = false; } } catch (MalformedURLException e) { status = false; e.printStackTrace(); } catch (IOException e) { status = false; e.printStackTrace(); } return new CheckAvailabilityResult(status, url); }
Code Sample 2:
@Deprecated public static Collection<SearchKeyResult> searchKey(String iText, String iKeyServer) throws Exception { List<SearchKeyResult> outVec = new ArrayList<SearchKeyResult>(); String uri = iKeyServer + "/pks/lookup?search=" + URLEncoder.encode(iText, UTF8); 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 = decodeHTML(regexMatcher.group(4)); outVec.add(new SearchKeyResult(id, name, downDate, downUrl)); } } IOUtils.closeQuietly(input); return outVec; }
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Code Sample 1:
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 Bundle"); 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(); } }
Code Sample 2:
public static String encrypt(String passPhrase, String password) { String algorithm = "PBEWithMD5AndDES"; byte[] salt = new byte[8]; int iterations = 20; byte[] output = new byte[128]; if (passPhrase == null || "".equals(passPhrase) || password == null || "".equals(password)) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "Required parameter missing"); } try { Security.addProvider(new com.sun.crypto.provider.SunJCE()); KeySpec keySpec = new PBEKeySpec(passPhrase.toCharArray()); SecretKeyFactory secretKeyFactory = SecretKeyFactory.getInstance(algorithm); SecretKey secretKey = secretKeyFactory.generateSecret(keySpec); MessageDigest messageDigest = MessageDigest.getInstance("MD5"); messageDigest.update(passPhrase.getBytes()); byte[] input = new byte[password.length()]; input = password.getBytes(); messageDigest.update(input); byte[] digest = messageDigest.digest(); System.arraycopy(digest, 0, salt, 0, 8); AlgorithmParameterSpec algorithmParameterSpec = new PBEParameterSpec(salt, iterations); Cipher cipher = Cipher.getInstance(algorithm); int mode = Cipher.ENCRYPT_MODE; cipher.init(mode, secretKey, algorithmParameterSpec); output = cipher.doFinal(input); } catch (NoSuchAlgorithmException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "Algorithm not found", e); } catch (InvalidAlgorithmParameterException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "nvalidAlgorithmParameter", e); } catch (InvalidKeySpecException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "InvalidKeySpec", e); } catch (InvalidKeyException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "InvalidKey", e); } catch (NoSuchPaddingException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "NoSuchPadding", e); } catch (BadPaddingException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "BadPadding", e); } catch (IllegalBlockSizeException e) { throw new GeneralException(PassPhraseCrypto.class, "encrypt", "IllegalBlockSize", e); } StringBuffer result = new StringBuffer(); for (int i = 0; i < output.length; i++) { result.append(Byte.toString(output[i])); } return result.toString(); }
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Code Sample 1:
protected static boolean copyFile(File src, File dest) { try { if (!dest.exists()) { dest.createNewFile(); } FileInputStream fis = new FileInputStream(src); FileOutputStream fos = new FileOutputStream(dest); byte[] temp = new byte[1024 * 8]; int readSize = 0; do { readSize = fis.read(temp); fos.write(temp, 0, readSize); } while (readSize == temp.length); temp = null; fis.close(); fos.flush(); fos.close(); } catch (Exception e) { return false; } return true; }
Code Sample 2:
private void addAuditDatastream() throws ObjectIntegrityException, StreamIOException { if (m_obj.getAuditRecords().size() == 0) { return; } String dsId = m_pid.toURI() + "/AUDIT"; String dsvId = dsId + "/" + DateUtility.convertDateToString(m_obj.getCreateDate()); Entry dsEntry = m_feed.addEntry(); dsEntry.setId(dsId); dsEntry.setTitle("AUDIT"); dsEntry.setUpdated(m_obj.getCreateDate()); dsEntry.addCategory(MODEL.STATE.uri, "A", null); dsEntry.addCategory(MODEL.CONTROL_GROUP.uri, "X", null); dsEntry.addCategory(MODEL.VERSIONABLE.uri, "false", null); dsEntry.addLink(dsvId, Link.REL_ALTERNATE); Entry dsvEntry = m_feed.addEntry(); dsvEntry.setId(dsvId); dsvEntry.setTitle("AUDIT.0"); dsvEntry.setUpdated(m_obj.getCreateDate()); ThreadHelper.addInReplyTo(dsvEntry, m_pid.toURI() + "/AUDIT"); dsvEntry.addCategory(MODEL.FORMAT_URI.uri, AUDIT1_0.uri, null); dsvEntry.addCategory(MODEL.LABEL.uri, "Audit Trail for this object", null); if (m_format.equals(ATOM_ZIP1_1)) { String name = "AUDIT.0.xml"; try { m_zout.putNextEntry(new ZipEntry(name)); Reader r = new StringReader(DOTranslationUtility.getAuditTrail(m_obj)); IOUtils.copy(r, m_zout, m_encoding); m_zout.closeEntry(); r.close(); } catch (IOException e) { throw new StreamIOException(e.getMessage(), e); } IRI iri = new IRI(name); dsvEntry.setSummary("AUDIT.0"); dsvEntry.setContent(iri, "text/xml"); } else { dsvEntry.setContent(DOTranslationUtility.getAuditTrail(m_obj), "text/xml"); } }
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Code Sample 1:
private void trainSRLParser(byte flag, JarArchiveOutputStream zout) throws Exception { AbstractSRLParser labeler = null; AbstractDecoder[] decoder = null; if (flag == SRLParser.FLAG_TRAIN_LEXICON) { System.out.println("\n* Save lexica"); labeler = new SRLParser(flag, s_featureXml); } else if (flag == SRLParser.FLAG_TRAIN_INSTANCE) { System.out.println("\n* Print training instances"); System.out.println("- loading lexica"); labeler = new SRLParser(flag, t_xml, s_lexiconFiles); } else if (flag == SRLParser.FLAG_TRAIN_BOOST) { System.out.println("\n* Train boost"); decoder = new AbstractDecoder[m_model.length]; for (int i = 0; i < decoder.length; i++) decoder[i] = new OneVsAllDecoder((OneVsAllModel) m_model[i]); labeler = new SRLParser(flag, t_xml, t_map, decoder); } AbstractReader<DepNode, DepTree> reader = new SRLReader(s_trainFile, true); DepTree tree; int n; labeler.setLanguage(s_language); reader.setLanguage(s_language); for (n = 0; (tree = reader.nextTree()) != null; n++) { labeler.parse(tree); if (n % 1000 == 0) System.out.printf("\r- parsing: %dK", n / 1000); } System.out.println("\r- labeling: " + n); if (flag == SRLParser.FLAG_TRAIN_LEXICON) { System.out.println("- labeling"); labeler.saveTags(s_lexiconFiles); t_xml = labeler.getSRLFtrXml(); } else if (flag == SRLParser.FLAG_TRAIN_INSTANCE || flag == SRLParser.FLAG_TRAIN_BOOST) { a_yx = labeler.a_trans; zout.putArchiveEntry(new JarArchiveEntry(ENTRY_FEATURE)); IOUtils.copy(new FileInputStream(s_featureXml), zout); zout.closeArchiveEntry(); for (String lexicaFile : s_lexiconFiles) { zout.putArchiveEntry(new JarArchiveEntry(lexicaFile)); IOUtils.copy(new FileInputStream(lexicaFile), zout); zout.closeArchiveEntry(); } if (flag == SRLParser.FLAG_TRAIN_INSTANCE) t_map = labeler.getSRLFtrMap(); } }
Code Sample 2:
private void setManagedContent(Entry entry, Datastream vds) throws StreamIOException { if (m_transContext == DOTranslationUtility.SERIALIZE_EXPORT_ARCHIVE && !m_format.equals(ATOM_ZIP1_1)) { String mimeType = vds.DSMIME; if (MimeTypeHelper.isText(mimeType) || MimeTypeHelper.isXml(mimeType)) { try { entry.setContent(IOUtils.toString(vds.getContentStream(), m_encoding), mimeType); } catch (IOException e) { throw new StreamIOException(e.getMessage(), e); } } else { entry.setContent(vds.getContentStream(), mimeType); } } else { String dsLocation; IRI iri; if (m_format.equals(ATOM_ZIP1_1) && m_transContext != DOTranslationUtility.AS_IS) { dsLocation = vds.DSVersionID + "." + MimeTypeUtils.fileExtensionForMIMEType(vds.DSMIME); try { m_zout.putNextEntry(new ZipEntry(dsLocation)); IOUtils.copy(vds.getContentStream(), m_zout); m_zout.closeEntry(); } catch (IOException e) { throw new StreamIOException(e.getMessage(), e); } } else { dsLocation = StreamUtility.enc(DOTranslationUtility.normalizeDSLocationURLs(m_obj.getPid(), vds, m_transContext).DSLocation); } iri = new IRI(dsLocation); entry.setSummary(vds.DSVersionID); entry.setContent(iri, vds.DSMIME); } }
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Code Sample 1:
@Test public void testCopy_readerToOutputStream_Encoding_nullEncoding() throws Exception { InputStream in = new ByteArrayInputStream(inData); in = new YellOnCloseInputStreamTest(in); Reader reader = new InputStreamReader(in, "US-ASCII"); ByteArrayOutputStream baout = new ByteArrayOutputStream(); OutputStream out = new YellOnFlushAndCloseOutputStreamTest(baout, false, true); IOUtils.copy(reader, out, null); assertEquals("Sizes differ", inData.length, baout.size()); assertTrue("Content differs", Arrays.equals(inData, baout.toByteArray())); }
Code Sample 2:
public void moveNext(String[] showOrder, String[] orgID, String targetShowOrder, String targetOrgID) throws Exception { Connection con = null; PreparedStatement ps = null; ResultSet result = null; int moveCount = showOrder.length; DBOperation dbo = factory.createDBOperation(POOL_NAME); String strQuery = "select show_order from " + Common.ORGANIZE_TABLE + " where show_order=" + showOrder[0] + " and organize_id= '" + orgID[0] + "'"; try { con = dbo.getConnection(); con.setAutoCommit(false); ps = con.prepareStatement(strQuery); result = ps.executeQuery(); int minOrderNo = 0; if (result.next()) { minOrderNo = result.getInt(1); } String[] sqls = new String[moveCount + 1]; sqls[0] = "update " + Common.ORGANIZE_TABLE + " set show_order=" + minOrderNo + " where show_order=" + targetShowOrder + " and organize_id= '" + targetOrgID + "'"; for (int i = 0; i < showOrder.length; i++) { sqls[i + 1] = "update " + Common.ORGANIZE_TABLE + " set show_order=show_order+1" + " where show_order=" + showOrder[i] + " and organize_id= '" + orgID[i] + "'"; } for (int j = 0; j < sqls.length; j++) { ps = con.prepareStatement(sqls[j]); int resultCount = ps.executeUpdate(); if (resultCount != 1) { throw new CesSystemException("Organize.moveNext(): ERROR Inserting data " + "in T_SYS_ORGANIZE update !! resultCount = " + resultCount); } } con.commit(); } catch (SQLException se) { if (con != null) { con.rollback(); } throw new CesSystemException("Organize.moveNext(): SQLException while mov organize order " + " :\n\t" + se); } finally { con.setAutoCommit(true); close(dbo, ps, result); } }
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Code Sample 1:
public static void copy(File file, File dir, boolean overwrite) throws IOException { BufferedInputStream bis = new BufferedInputStream(new FileInputStream(file)); File out = new File(dir, file.getName()); if (out.exists() && !overwrite) { throw new IOException("File: " + out + " already exists."); } FileOutputStream fos = new FileOutputStream(out, false); byte[] block = new byte[4096]; int read = bis.read(block); while (read != -1) { fos.write(block, 0, read); read = bis.read(block); } }
Code Sample 2:
public static boolean nioWriteFile(FileInputStream inputStream, FileOutputStream out) { if (inputStream == null && out == null) { return false; } try { FileChannel fci = inputStream.getChannel(); FileChannel fco = out.getChannel(); fco.transferFrom(fci, 0, fci.size()); return true; } catch (Exception e) { e.printStackTrace(); return false; } finally { FileUtil.safeClose(inputStream); FileUtil.safeClose(out); } }
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Code Sample 1:
public void get(final String remoteFilePath, final String remoteFileName, final String localName) { final FTPClient ftp = new FTPClient(); final FTPMessageCollector listener = new FTPMessageCollector(); try { final String localDirName = localName.substring(0, localName.lastIndexOf(File.separator)); System.out.println("ftp:"); System.out.println(" remoteDir " + remoteFilePath); System.out.println(" localDir " + localDirName); final File localDir = new File(localDirName); if (!localDir.exists()) { System.out.println(" create Dir " + localDirName); localDir.mkdir(); } ftp.setTimeout(10000); ftp.setRemoteHost(host); ftp.setMessageListener(listener); } catch (final UnknownHostException e) { showConnectError(); return; } catch (final Exception e) { e.printStackTrace(); } final TileInfoManager tileInfoMgr = TileInfoManager.getInstance(); final Job downloadJob = new Job(Messages.job_name_ftpDownload) { @Override protected IStatus run(final IProgressMonitor monitor) { try { showTileInfo(remoteFileName, -1); System.out.println(" connect " + host); ftp.connect(); showTileInfo(remoteFileName, -2); System.out.println(" login " + user + " " + password); ftp.login(user, password); System.out.println(" set passive mode"); ftp.setConnectMode(FTPConnectMode.PASV); System.out.println(" set type binary"); ftp.setType(FTPTransferType.BINARY); showTileInfo(remoteFileName, -3); System.out.println(" chdir " + remoteFilePath); ftp.chdir(remoteFilePath); ftp.setProgressMonitor(new FTPProgressMonitor() { public void bytesTransferred(final long count) { tileInfoMgr.updateSRTMTileInfo(TileEventId.SRTM_DATA_LOADING_MONITOR, remoteFileName, count); } }); showTileInfo(remoteFileName, -4); System.out.println(" get " + remoteFileName + " -> " + localName + " ..."); ftp.get(localName, remoteFileName); System.out.println(" quit"); ftp.quit(); } catch (final UnknownHostException e) { return new Status(IStatus.ERROR, TourbookPlugin.PLUGIN_ID, IStatus.ERROR, NLS.bind(Messages.error_message_cannotConnectToServer, host), e); } catch (final SocketTimeoutException e) { return new Status(IStatus.ERROR, TourbookPlugin.PLUGIN_ID, IStatus.ERROR, NLS.bind(Messages.error_message_timeoutWhenConnectingToServer, host), e); } catch (final Exception e) { e.printStackTrace(); tileInfoMgr.updateSRTMTileInfo(TileEventId.SRTM_DATA_ERROR_LOADING, remoteFileName, 0); } finally { tileInfoMgr.updateSRTMTileInfo(TileEventId.SRTM_DATA_END_LOADING, remoteFileName, 0); } return Status.OK_STATUS; } }; downloadJob.schedule(); try { downloadJob.join(); } catch (final InterruptedException e) { e.printStackTrace(); } }
Code Sample 2:
private String calculateMD5(String input) throws NoSuchAlgorithmException { MessageDigest digest = MessageDigest.getInstance("MD5"); digest.reset(); digest.update(input.getBytes()); byte[] md5 = digest.digest(); String tmp = ""; String res = ""; for (int i = 0; i < md5.length; i++) { tmp = (Integer.toHexString(0xFF & md5[i])); if (tmp.length() == 1) { res += "0" + tmp; } else { res += tmp; } } return res; }
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Code Sample 1:
public static void processRequest(byte[] b) throws Exception { URL url = new URL("http://localhost:8080/instantsoap-ws-echotest-1.0/services/instantsoap/applications"); URLConnection connection = url.openConnection(); HttpURLConnection httpConn = (HttpURLConnection) connection; httpConn.setRequestProperty("Content-Length", String.valueOf(b.length)); httpConn.setRequestProperty("Content-Type", "text/xml; charset=utf-8"); httpConn.setRequestProperty("SOAPAction", ""); httpConn.setRequestMethod("POST"); httpConn.setDoOutput(true); httpConn.setDoInput(true); OutputStream out = httpConn.getOutputStream(); out.write(b); out.close(); BufferedReader in = new BufferedReader(new InputStreamReader(httpConn.getInputStream())); String inputLine; while ((inputLine = in.readLine()) != null) System.out.println(inputLine); in.close(); }
Code Sample 2:
public boolean loadResource(String resourcePath) { try { URL url = Thread.currentThread().getContextClassLoader().getResource(resourcePath); if (url == null) { logger.error("Cannot find the resource named: '" + resourcePath + "'. Failed to load the keyword list."); return false; } InputStreamReader isr = new InputStreamReader(url.openStream()); BufferedReader br = new BufferedReader(isr); String ligne = br.readLine(); while (ligne != null) { if (!contains(ligne.toUpperCase())) addLast(ligne.toUpperCase()); ligne = br.readLine(); } return true; } catch (IOException ioe) { logger.log(Level.ERROR, "Cannot load default SQL keywords file.", ioe); } return false; }
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Code Sample 1:
public static File enregistrerFichier(String fileName, File file, String path, String fileMime) throws Exception { if (file != null) { try { HttpServletRequest request = ServletActionContext.getRequest(); HttpSession session = request.getSession(); String pathFile = session.getServletContext().getRealPath(path) + File.separator + fileName; File outfile = new File(pathFile); String[] nomPhotoTab = fileName.split("\\."); String extension = nomPhotoTab[nomPhotoTab.length - 1]; StringBuffer pathResBuff = new StringBuffer(nomPhotoTab[0]); for (int i = 1; i < nomPhotoTab.length - 1; i++) { pathResBuff.append(".").append(nomPhotoTab[i]); } String pathRes = pathResBuff.toString(); String nomPhoto = fileName; for (int i = 0; !outfile.createNewFile(); i++) { nomPhoto = pathRes + "_" + +i + "." + extension; pathFile = session.getServletContext().getRealPath(path) + File.separator + nomPhoto; outfile = new File(pathFile); } logger.debug(" enregistrerFichier - Enregistrement du fichier : " + pathFile); FileChannel in = null; FileChannel out = null; try { in = new FileInputStream(file).getChannel(); out = new FileOutputStream(outfile).getChannel(); in.transferTo(0, in.size(), out); } catch (Exception e) { e.printStackTrace(); } finally { if (in != null) { try { in.close(); } catch (IOException e) { } } if (out != null) { try { out.close(); } catch (IOException e) { } } } return outfile; } catch (IOException e) { logger.error("Erreur lors de l'enregistrement de l'image ", e); throw new Exception("Erreur lors de l'enregistrement de l'image "); } } return null; }
Code Sample 2:
public static void downloadFile(HttpServletResponse response, String file) throws IOException { response.setContentType(FileUtils.getContentType(file)); response.setContentLength(FileUtils.getContentLength(file)); response.setHeader("Content-type", ResponseUtils.DOWNLOAD_CONTENT_TYPE); response.setHeader("Content-Disposition", "attachment; filename=\"" + FileUtils.getFileName(file) + "\""); response.setHeader("Content-Length", Integer.toString(FileUtils.getContentLength(file))); InputStream input = new FileInputStream(file); OutputStream output = response.getOutputStream(); IOUtils.copy(input, output, true); }
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Code Sample 1:
public static String md5(String value) { try { MessageDigest messageDigest = MessageDigest.getInstance("MD5"); messageDigest.update(value.getBytes()); return bytesToString(messageDigest.digest()); } catch (Exception ex) { Tools.logException(Tools.class, ex, value); } return value; }
Code Sample 2:
public static Chunk updateLastSend(Chunk c) throws Exception { DBConnectionManager dbm = null; Connection conn = null; PreparedStatement stmt = null; Chunk ret = null; String SQL = "UPDATE CHUNK SET SENT=? WHERE FILEHASH=? AND STARTOFF=? AND LENGTH=?"; log.debug("update chunk last sent for chunk " + c.getHash() + " startoff " + c.getStartOffset()); try { dbm = DBConnectionManager.getInstance(); conn = dbm.getConnection("satmule"); stmt = conn.prepareStatement(SQL); stmt.setDate(1, new java.sql.Date(c.getLastSend().getTime())); stmt.setString(2, c.getHash()); stmt.setLong(3, c.getStartOffset()); stmt.setLong(4, c.getSize()); stmt.executeUpdate(); conn.commit(); stmt.close(); dbm.freeConnection("satmule", conn); } catch (Exception e) { log.error("Error while updating chunk " + c.getHash() + "offset:" + c.getStartOffset() + "SQL error: " + SQL, e); Exception excep; if (dbm == null) excep = new Exception("Could not obtain pool object DbConnectionManager"); else if (conn == null) excep = new Exception("The Db connection pool could not obtain a database connection"); else { conn.rollback(); excep = new Exception("SQL Error : " + SQL + " error: " + e); dbm.freeConnection("satmule", conn); } throw excep; } return ret; }
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Code Sample 1:
private void load() throws SQLException { Connection conn = null; Statement stmt = null; try { conn = FidoDataSource.getConnection(); conn.setAutoCommit(false); stmt = conn.createStatement(); ClearData.clearTables(stmt); stmt.executeUpdate("insert into AttributeCategories (CategoryName) values ('color')"); stmt.executeUpdate("insert into Attributes (AttributeName, Category) values ('blue', 'color')"); stmt.executeUpdate("insert into Attributes (AttributeName, Category) values ('red', 'color')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (100, 'ball')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (101, 'blue ball')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (102, 'red ball')"); stmt.executeQuery("select setval('objects_objectid_seq', 1000)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (100, 'isa', 1)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (101, 'instance', 100)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (102, 'instance', 100)"); stmt.executeUpdate("insert into ObjectAttributes (ObjectId, AttributeName) values (101, 'blue')"); stmt.executeUpdate("insert into ObjectAttributes (ObjectId, AttributeName) values (102, 'red')"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('LEFT-WALL', '1', 'AV+ | ADJ+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('the', '1', 'D+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('red', '1', 'ADJ- | ADJ+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('blue', '1', 'ADJ- | ADJ+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('ball', '1', '[@ADJ-] & [D-] & DO-', 100)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('throw', '1', 'AV- & DO+', 1)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('DO', 3)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('AV', 7)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('D', 10)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('ADJ', 11)"); stmt.executeUpdate("insert into Articles (ArticleName, Dereference) values ('the', 1)"); stmt.executeUpdate("insert into FrameSlots (SlotName) values ('object')"); stmt.executeUpdate("insert into QuestionWords (QuestionWord, Type) values ('which', 7)"); stmt.executeUpdate("insert into Verbs (VerbName, Type, SubjectSlot, IndirectObjectSlot, PredicateNounSlot) values ('throw', 1, '', '', 'object')"); stmt.executeQuery("select setval('instructions_instructionid_seq', 1)"); stmt.executeUpdate("insert into Instructions (Type, ExecuteString, FrameSlot, Operator, LinkName, ObjectId, AttributeName) " + "values (3, '', null, 0, null, null, null)"); stmt.executeQuery("select setval('transactions_transactionid_seq', 1)"); stmt.executeUpdate("insert into Transactions (InstructionId, Description) values (2, 'throw')"); stmt.executeQuery("select setval('verbtransactions_verbid_seq', 1)"); stmt.executeUpdate("insert into VerbTransactions (VerbString, MoodType, TransactionId) values ('throw', 1, 2)"); stmt.executeUpdate("insert into VerbConstraints (VerbId, FrameSlot, ObjectId) values (2, 'object', 1)"); stmt.executeUpdate("update SystemProperties set value = 'Tutorial 3 Data' where name = 'DB Data Version'"); conn.commit(); } catch (SQLException e) { if (conn != null) conn.rollback(); throw e; } finally { if (stmt != null) stmt.close(); if (conn != null) conn.close(); } }
Code Sample 2:
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!"); }
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Code Sample 1:
public static void copyFile(File source, File target) throws Exception { if (source.isDirectory()) { if (!target.isDirectory()) { target.mkdirs(); } String[] children = source.list(); for (int i = 0; i < children.length; i++) { copyFile(new File(source, children[i]), new File(target, children[i])); } } else { FileChannel inChannel = new FileInputStream(source).getChannel(); FileChannel outChannel = new FileOutputStream(target).getChannel(); try { int maxCount = (64 * 1024 * 1024) - (32 * 1024); long size = inChannel.size(); long position = 0; while (position < size) { position += inChannel.transferTo(position, maxCount, outChannel); } } catch (IOException e) { errorLog("{Malgn.copyFile} " + e.getMessage()); throw e; } finally { if (inChannel != null) inChannel.close(); if (outChannel != null) outChannel.close(); } } }
Code Sample 2:
private LinkedList<Datum> processDatum(Datum dataset) { ArrayList<Object[]> markerTestResults = new ArrayList<Object[]>(); ArrayList<Object[]> alleleEstimateResults = new ArrayList<Object[]>(); boolean hasAlleleNames = false; String blank = new String(""); MarkerPhenotypeAdapter theAdapter; if (dataset.getDataType().equals(MarkerPhenotype.class)) { theAdapter = new MarkerPhenotypeAdapter((MarkerPhenotype) dataset.getData()); } else theAdapter = new MarkerPhenotypeAdapter((Phenotype) dataset.getData()); int numberOfMarkers = theAdapter.getNumberOfMarkers(); if (numberOfMarkers == 0) { return calculateBLUEsFromPhenotypes(theAdapter, dataset.getName()); } int numberOfCovariates = theAdapter.getNumberOfCovariates(); int numberOfFactors = theAdapter.getNumberOfFactors(); int numberOfPhenotypes = theAdapter.getNumberOfPhenotypes(); int expectedIterations = numberOfPhenotypes * numberOfMarkers; int iterationsSofar = 0; int percentFinished = 0; File tempFile = null; File ftestFile = null; File blueFile = null; BufferedWriter ftestWriter = null; BufferedWriter BLUEWriter = null; String ftestHeader = "Trait\tMarker\tLocus\tLocus_pos\tChr\tChr_pos\tmarker_F\tmarker_p\tperm_p\tmarkerR2\tmarkerDF\tmarkerMS\terrorDF\terrorMS\tmodelDF\tmodelMS"; String BLUEHeader = "Trait\tMarker\tObs\tLocus\tLocus_pos\tChr\tChr_pos\tAllele\tEstimate"; if (writeOutputToFile) { String outputbase = outputName; if (outputbase.endsWith(".txt")) { int index = outputbase.lastIndexOf("."); outputbase = outputbase.substring(0, index); } String datasetNameNoSpace = dataset.getName().trim().replaceAll("\\ ", "_"); ftestFile = new File(outputbase + "_" + datasetNameNoSpace + "_ftest.txt"); int count = 0; while (ftestFile.exists()) { count++; ftestFile = new File(outputbase + "_" + datasetNameNoSpace + "_ftest" + count + ".txt"); } blueFile = new File(outputbase + "_" + datasetNameNoSpace + "_BLUEs.txt"); count = 0; while (blueFile.exists()) { count++; blueFile = new File(outputbase + "_" + datasetNameNoSpace + "_BLUEs" + count + ".txt"); } tempFile = new File(outputbase + "_" + datasetNameNoSpace + "_ftest.tmp"); try { if (permute) { ftestWriter = new BufferedWriter(new FileWriter(tempFile)); ftestWriter.write(ftestHeader); ftestWriter.newLine(); } else { ftestWriter = new BufferedWriter(new FileWriter(ftestFile)); ftestWriter.write(ftestHeader); ftestWriter.newLine(); } if (reportBLUEs) { BLUEWriter = new BufferedWriter(new FileWriter(blueFile)); BLUEWriter.write(BLUEHeader); BLUEWriter.newLine(); } } catch (IOException e) { myLogger.error("Failed to open file for output"); myLogger.error(e); return null; } } if (permute) { minP = new double[numberOfPhenotypes][numberOfPermutations]; for (int i = 0; i < numberOfPermutations; i++) { for (int j = 0; j < numberOfPhenotypes; j++) { minP[j][i] = 1; } } } for (int ph = 0; ph < numberOfPhenotypes; ph++) { double[] phenotypeData = theAdapter.getPhenotypeValues(ph); boolean[] missing = theAdapter.getMissingPhenotypes(ph); ArrayList<String[]> factorList = MarkerPhenotypeAdapterUtils.getFactorList(theAdapter, ph, missing); ArrayList<double[]> covariateList = MarkerPhenotypeAdapterUtils.getCovariateList(theAdapter, ph, missing); double[][] permutedData = null; if (permute) { permutedData = permuteData(phenotypeData, missing, factorList, covariateList, theAdapter); } for (int m = 0; m < numberOfMarkers; m++) { Object[] markerData = theAdapter.getMarkerValue(ph, m); boolean[] finalMissing = new boolean[missing.length]; System.arraycopy(missing, 0, finalMissing, 0, missing.length); MarkerPhenotypeAdapterUtils.updateMissing(finalMissing, theAdapter.getMissingMarkers(ph, m)); int[] nonmissingRows = MarkerPhenotypeAdapterUtils.getNonMissingIndex(finalMissing); int numberOfObs = nonmissingRows.length; double[] y = new double[numberOfObs]; for (int i = 0; i < numberOfObs; i++) y[i] = phenotypeData[nonmissingRows[i]]; int firstMarkerAlleleEstimate = 1; ArrayList<ModelEffect> modelEffects = new ArrayList<ModelEffect>(); FactorModelEffect meanEffect = new FactorModelEffect(new int[numberOfObs], false); meanEffect.setID("mean"); modelEffects.add(meanEffect); if (numberOfFactors > 0) { for (int f = 0; f < numberOfFactors; f++) { String[] afactor = factorList.get(f); String[] factorLabels = new String[numberOfObs]; for (int i = 0; i < numberOfObs; i++) factorLabels[i] = afactor[nonmissingRows[i]]; FactorModelEffect fme = new FactorModelEffect(ModelEffectUtils.getIntegerLevels(factorLabels), true, theAdapter.getFactorName(f)); modelEffects.add(fme); firstMarkerAlleleEstimate += fme.getNumberOfLevels() - 1; } } if (numberOfCovariates > 0) { for (int c = 0; c < numberOfCovariates; c++) { double[] covar = new double[numberOfObs]; double[] covariateData = covariateList.get(c); for (int i = 0; i < numberOfObs; i++) covar[i] = covariateData[nonmissingRows[i]]; modelEffects.add(new CovariateModelEffect(covar, theAdapter.getCovariateName(c))); firstMarkerAlleleEstimate++; } } ModelEffect markerEffect; boolean markerIsDiscrete = theAdapter.isMarkerDiscrete(m); ArrayList<Object> alleleNames = new ArrayList<Object>(); if (markerIsDiscrete) { Object[] markers = new Object[numberOfObs]; for (int i = 0; i < numberOfObs; i++) markers[i] = markerData[nonmissingRows[i]]; int[] markerLevels = ModelEffectUtils.getIntegerLevels(markers, alleleNames); markerEffect = new FactorModelEffect(markerLevels, true, theAdapter.getMarkerName(m)); hasAlleleNames = true; } else { double[] markerdbl = new double[numberOfObs]; for (int i = 0; i < numberOfObs; i++) markerdbl[i] = ((Double) markerData[nonmissingRows[i]]).doubleValue(); markerEffect = new CovariateModelEffect(markerdbl, theAdapter.getMarkerName(m)); } int[] alleleCounts = markerEffect.getLevelCounts(); modelEffects.add(markerEffect); int markerEffectNumber = modelEffects.size() - 1; Identifier[] taxaSublist = new Identifier[numberOfObs]; Identifier[] taxa = theAdapter.getTaxa(ph); for (int i = 0; i < numberOfObs; i++) taxaSublist[i] = taxa[nonmissingRows[i]]; boolean areTaxaReplicated = containsDuplicates(taxaSublist); double[] markerSSdf = null, errorSSdf = null, modelSSdf = null; double F, p; double[] beta = null; if (areTaxaReplicated && markerIsDiscrete) { ModelEffect taxaEffect = new FactorModelEffect(ModelEffectUtils.getIntegerLevels(taxaSublist), true); modelEffects.add(taxaEffect); SweepFastNestedModel sfnm = new SweepFastNestedModel(modelEffects, y); double[] taxaSSdf = sfnm.getTaxaInMarkerSSdf(); double[] residualSSdf = sfnm.getErrorSSdf(); markerSSdf = sfnm.getMarkerSSdf(); errorSSdf = sfnm.getErrorSSdf(); modelSSdf = sfnm.getModelcfmSSdf(); F = markerSSdf[0] / markerSSdf[1] / taxaSSdf[0] * taxaSSdf[1]; try { p = LinearModelUtils.Ftest(F, markerSSdf[1], taxaSSdf[1]); } catch (Exception e) { p = Double.NaN; } beta = sfnm.getBeta(); int markerdf = (int) markerSSdf[1]; if (permute && markerdf > 0) { updatePermutationPValues(ph, permutedData, nonMissingIndex(missing, finalMissing), getXfromModelEffects(modelEffects), sfnm.getInverseOfXtX(), markerdf); } } else { SweepFastLinearModel sflm = new SweepFastLinearModel(modelEffects, y); modelSSdf = sflm.getModelcfmSSdf(); markerSSdf = sflm.getMarginalSSdf(markerEffectNumber); errorSSdf = sflm.getResidualSSdf(); F = markerSSdf[0] / markerSSdf[1] / errorSSdf[0] * errorSSdf[1]; try { p = LinearModelUtils.Ftest(F, markerSSdf[1], errorSSdf[1]); } catch (Exception e) { p = Double.NaN; } beta = sflm.getBeta(); int markerdf = (int) markerSSdf[1]; if (permute && markerdf > 0) { updatePermutationPValues(ph, permutedData, nonMissingIndex(missing, finalMissing), getXfromModelEffects(modelEffects), sflm.getInverseOfXtX(), markerdf); } } if (!filterOutput || p < maxp) { String traitname = theAdapter.getPhenotypeName(ph); if (traitname == null) traitname = blank; String marker = theAdapter.getMarkerName(m); if (marker == null) marker = blank; String locus = theAdapter.getLocusName(m); Integer site = new Integer(theAdapter.getLocusPosition(m)); String chrname = ""; Double chrpos = Double.NaN; if (hasMap) { int ndx = -1; ndx = myMap.getMarkerIndex(marker); if (ndx > -1) { chrname = myMap.getChromosome(ndx); chrpos = myMap.getGeneticPosition(ndx); } } Object[] result = new Object[16]; int col = 0; result[col++] = traitname; result[col++] = marker; result[col++] = locus; result[col++] = site; result[col++] = chrname; result[col++] = chrpos; result[col++] = new Double(F); result[col++] = new Double(p); result[col++] = Double.NaN; result[col++] = new Double(markerSSdf[0] / (modelSSdf[0] + errorSSdf[0])); result[col++] = new Double(markerSSdf[1]); result[col++] = new Double(markerSSdf[0] / markerSSdf[1]); result[col++] = new Double(errorSSdf[1]); result[col++] = new Double(errorSSdf[0] / errorSSdf[1]); result[col++] = new Double(modelSSdf[1]); result[col++] = new Double(modelSSdf[0] / modelSSdf[1]); if (writeOutputToFile) { StringBuilder sb = new StringBuilder(); sb.append(result[0]); for (int i = 1; i < 16; i++) sb.append("\t").append(result[i]); try { ftestWriter.write(sb.toString()); ftestWriter.newLine(); } catch (IOException e) { myLogger.error("Failed to write output to ftest file. Ending prematurely"); try { ftestWriter.flush(); BLUEWriter.flush(); } catch (Exception e1) { } myLogger.error(e); return null; } } else { markerTestResults.add(result); } int numberOfMarkerAlleles = alleleNames.size(); if (numberOfMarkerAlleles == 0) numberOfMarkerAlleles++; for (int i = 0; i < numberOfMarkerAlleles; i++) { result = new Object[9]; result[0] = traitname; result[1] = marker; result[2] = new Integer(alleleCounts[i]); result[3] = locus; result[4] = site; result[5] = chrname; result[6] = chrpos; if (numberOfMarkerAlleles == 1) result[7] = ""; else result[7] = alleleNames.get(i); if (i == numberOfMarkerAlleles - 1) result[8] = 0.0; else result[8] = beta[firstMarkerAlleleEstimate + i]; if (writeOutputToFile) { StringBuilder sb = new StringBuilder(); sb.append(result[0]); for (int j = 1; j < 9; j++) sb.append("\t").append(result[j]); try { BLUEWriter.write(sb.toString()); BLUEWriter.newLine(); } catch (IOException e) { myLogger.error("Failed to write output to ftest file. Ending prematurely"); try { ftestWriter.flush(); BLUEWriter.flush(); } catch (Exception e1) { } myLogger.error(e); return null; } } else { alleleEstimateResults.add(result); } } } int tmpPercent = ++iterationsSofar * 100 / expectedIterations; if (tmpPercent > percentFinished) { percentFinished = tmpPercent; fireProgress(percentFinished); } } } fireProgress(0); if (writeOutputToFile) { try { ftestWriter.close(); BLUEWriter.close(); } catch (IOException e) { e.printStackTrace(); } } HashMap<String, Integer> traitnameMap = new HashMap<String, Integer>(); if (permute) { for (int ph = 0; ph < numberOfPhenotypes; ph++) { Arrays.sort(minP[ph]); traitnameMap.put(theAdapter.getPhenotypeName(ph), ph); } if (writeOutputToFile) { try { BufferedReader tempReader = new BufferedReader(new FileReader(tempFile)); ftestWriter = new BufferedWriter(new FileWriter(ftestFile)); ftestWriter.write(tempReader.readLine()); ftestWriter.newLine(); String input; String[] data; Pattern tab = Pattern.compile("\t"); while ((input = tempReader.readLine()) != null) { data = tab.split(input); String trait = data[0]; double pval = Double.parseDouble(data[7]); int ph = traitnameMap.get(trait); int ndx = Arrays.binarySearch(minP[ph], pval); if (ndx < 0) ndx = -ndx - 1; if (ndx == 0) ndx = 1; data[8] = Double.toString((double) ndx / (double) numberOfPermutations); ftestWriter.write(data[0]); for (int i = 1; i < data.length; i++) { ftestWriter.write("\t"); ftestWriter.write(data[i]); } ftestWriter.newLine(); } tempReader.close(); ftestWriter.close(); tempFile.delete(); } catch (IOException e) { myLogger.error(e); } } else { for (Object[] result : markerTestResults) { String trait = result[0].toString(); double pval = (Double) result[7]; int ph = traitnameMap.get(trait); int ndx = Arrays.binarySearch(minP[ph], pval); if (ndx < 0) ndx = -ndx - 1; if (ndx == 0) ndx = 1; result[8] = new Double((double) ndx / (double) numberOfPermutations); } } } String[] columnLabels = new String[] { "Trait", "Marker", "Locus", "Locus_pos", "Chr", "Chr_pos", "marker_F", "marker_p", "perm_p", "markerR2", "markerDF", "markerMS", "errorDF", "errorMS", "modelDF", "modelMS" }; boolean hasMarkerNames = theAdapter.hasMarkerNames(); LinkedList<Integer> outputList = new LinkedList<Integer>(); outputList.add(0); if (hasMarkerNames) outputList.add(1); outputList.add(2); outputList.add(3); if (hasMap) { outputList.add(4); outputList.add(5); } outputList.add(6); outputList.add(7); if (permute) outputList.add(8); for (int i = 9; i < 16; i++) outputList.add(i); LinkedList<Datum> resultset = new LinkedList<Datum>(); int nrows = markerTestResults.size(); Object[][] table = new Object[nrows][]; int numberOfColumns = outputList.size(); String[] colnames = new String[numberOfColumns]; int count = 0; for (Integer ndx : outputList) colnames[count++] = columnLabels[ndx]; for (int i = 0; i < nrows; i++) { table[i] = new Object[numberOfColumns]; Object[] result = markerTestResults.get(i); count = 0; for (Integer ndx : outputList) table[i][count++] = result[ndx]; } StringBuilder tableName = new StringBuilder("GLM_marker_test_"); tableName.append(dataset.getName()); StringBuilder comments = new StringBuilder("Tests of Marker-Phenotype Association"); comments.append("GLM: fixed effect linear model\n"); comments.append("Data set: ").append(dataset.getName()); comments.append("\nmodel: trait = mean"); for (int i = 0; i < theAdapter.getNumberOfFactors(); i++) { comments.append(" + "); comments.append(theAdapter.getFactorName(i)); } for (int i = 0; i < theAdapter.getNumberOfCovariates(); i++) { comments.append(" + "); comments.append(theAdapter.getCovariateName(i)); } comments.append(" + marker"); if (writeOutputToFile) { comments.append("\nOutput written to " + ftestFile.getPath()); } TableReport markerTestReport = new SimpleTableReport("Marker Test", colnames, table); resultset.add(new Datum(tableName.toString(), markerTestReport, comments.toString())); int[] outputIndex; columnLabels = new String[] { "Trait", "Marker", "Obs", "Locus", "Locus_pos", "Chr", "Chr_pos", "Allele", "Estimate" }; if (hasAlleleNames) { if (hasMarkerNames && hasMap) { outputIndex = new int[] { 0, 1, 2, 3, 4, 5, 6, 7, 8 }; } else if (hasMarkerNames) { outputIndex = new int[] { 0, 1, 2, 3, 4, 7, 8 }; } else if (hasMap) { outputIndex = new int[] { 0, 2, 3, 4, 5, 6, 7, 8 }; } else { outputIndex = new int[] { 0, 2, 3, 4, 7, 8 }; } } else { if (hasMarkerNames && hasMap) { outputIndex = new int[] { 0, 1, 2, 3, 4, 5, 6, 8 }; } else if (hasMarkerNames) { outputIndex = new int[] { 0, 1, 2, 3, 4, 8 }; } else if (hasMap) { outputIndex = new int[] { 0, 2, 3, 4, 5, 6, 8 }; } else { outputIndex = new int[] { 0, 2, 3, 4, 8 }; } } nrows = alleleEstimateResults.size(); table = new Object[nrows][]; numberOfColumns = outputIndex.length; colnames = new String[numberOfColumns]; for (int j = 0; j < numberOfColumns; j++) { colnames[j] = columnLabels[outputIndex[j]]; } for (int i = 0; i < nrows; i++) { table[i] = new Object[numberOfColumns]; Object[] result = alleleEstimateResults.get(i); for (int j = 0; j < numberOfColumns; j++) { table[i][j] = result[outputIndex[j]]; } } tableName = new StringBuilder("GLM allele estimates for "); tableName.append(dataset.getName()); comments = new StringBuilder("Marker allele effect estimates\n"); comments.append("GLM: fixed effect linear model\n"); comments.append("Data set: ").append(dataset.getName()); comments.append("\nmodel: trait = mean"); for (int i = 0; i < theAdapter.getNumberOfFactors(); i++) { comments.append(" + "); comments.append(theAdapter.getFactorName(i)); } for (int i = 0; i < theAdapter.getNumberOfCovariates(); i++) { comments.append(" + "); comments.append(theAdapter.getCovariateName(i)); } comments.append(" + marker"); if (writeOutputToFile) { comments.append("\nOutput written to " + blueFile.getPath()); } TableReport alleleEstimateReport = new SimpleTableReport("Allele Estimates", colnames, table); resultset.add(new Datum(tableName.toString(), alleleEstimateReport, comments.toString())); fireProgress(0); return resultset; }
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Code Sample 1:
public boolean copyFile(File source, File dest) { try { FileReader in = new FileReader(source); FileWriter out = new FileWriter(dest); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); return true; } catch (Exception e) { return false; } }
Code Sample 2:
public CmsSetupTestResult execute(CmsSetupBean setupBean) { CmsSetupTestResult testResult = new CmsSetupTestResult(this); String basePath = setupBean.getWebAppRfsPath(); if (!basePath.endsWith(File.separator)) { basePath += File.separator; } File file1; Random rnd = new Random(); do { file1 = new File(basePath + "test" + rnd.nextInt(1000)); } while (file1.exists()); boolean success = false; try { file1.createNewFile(); FileWriter fw = new FileWriter(file1); fw.write("aA1"); fw.close(); success = true; FileReader fr = new FileReader(file1); success = success && (fr.read() == 'a'); success = success && (fr.read() == 'A'); success = success && (fr.read() == '1'); success = success && (fr.read() == -1); fr.close(); success = file1.delete(); success = !file1.exists(); } catch (Exception e) { success = false; } if (!success) { testResult.setRed(); testResult.setInfo("OpenCms cannot be installed without read and write privileges for path " + basePath + "! Please check you are running your servlet container with the right user and privileges."); testResult.setHelp("Not enough permissions to create/read/write a file"); testResult.setResult(RESULT_FAILED); } else { testResult.setGreen(); testResult.setResult(RESULT_PASSED); } return testResult; }
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11
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Code Sample 1:
public static final void parse(String infile, String outfile) throws IOException { BufferedReader reader = new BufferedReader(new FileReader(infile)); DataOutputStream output = new DataOutputStream(new FileOutputStream(outfile)); int w = Integer.parseInt(reader.readLine()); int h = Integer.parseInt(reader.readLine()); output.writeByte(w); output.writeByte(h); int lineCount = 2; try { do { for (int i = 0; i < h; i++) { lineCount++; String line = reader.readLine(); if (line == null) { throw new RuntimeException("Unexpected end of file at line " + lineCount); } for (int j = 0; j < w; j++) { char c = line.charAt(j); System.out.print(c); output.writeByte(c); } System.out.println(""); } lineCount++; output.writeShort(Short.parseShort(reader.readLine())); } while (reader.readLine() != null); } finally { reader.close(); output.close(); } }
Code Sample 2:
public Object process(Atom oAtm) throws IOException { File oFile; FileReader oFileRead; String sPathHTML; char cBuffer[]; Object oReplaced; final String sSep = System.getProperty("file.separator"); if (DebugFile.trace) { DebugFile.writeln("Begin FileDumper.process([Job:" + getStringNull(DB.gu_job, "") + ", Atom:" + String.valueOf(oAtm.getInt(DB.pg_atom)) + "])"); DebugFile.incIdent(); } if (bHasReplacements) { sPathHTML = getProperty("workareasput"); if (!sPathHTML.endsWith(sSep)) sPathHTML += sSep; sPathHTML += getParameter("gu_workarea") + sSep + "apps" + sSep + "Mailwire" + sSep + "html" + sSep + getParameter("gu_pageset") + sSep; sPathHTML += getParameter("nm_pageset").replace(' ', '_') + ".html"; if (DebugFile.trace) DebugFile.writeln("PathHTML = " + sPathHTML); oReplaced = oReplacer.replace(sPathHTML, oAtm.getItemMap()); bHasReplacements = (oReplacer.lastReplacements() > 0); } else { oReplaced = null; if (null != oFileStr) oReplaced = oFileStr.get(); if (null == oReplaced) { sPathHTML = getProperty("workareasput"); if (!sPathHTML.endsWith(sSep)) sPathHTML += sSep; sPathHTML += getParameter("gu_workarea") + sSep + "apps" + sSep + "Mailwire" + sSep + "html" + sSep + getParameter("gu_pageset") + sSep + getParameter("nm_pageset").replace(' ', '_') + ".html"; if (DebugFile.trace) DebugFile.writeln("PathHTML = " + sPathHTML); oFile = new File(sPathHTML); cBuffer = new char[new Long(oFile.length()).intValue()]; oFileRead = new FileReader(oFile); oFileRead.read(cBuffer); oFileRead.close(); if (DebugFile.trace) DebugFile.writeln(String.valueOf(cBuffer.length) + " characters readed"); oReplaced = new String(cBuffer); oFileStr = new SoftReference(oReplaced); } } String sPathJobDir = getProperty("storage"); if (!sPathJobDir.endsWith(sSep)) sPathJobDir += sSep; sPathJobDir += "jobs" + sSep + getParameter("gu_workarea") + sSep + getString(DB.gu_job) + sSep; FileWriter oFileWrite = new FileWriter(sPathJobDir + getString(DB.gu_job) + "_" + String.valueOf(oAtm.getInt(DB.pg_atom)) + ".html", true); oFileWrite.write((String) oReplaced); oFileWrite.close(); iPendingAtoms--; if (DebugFile.trace) { DebugFile.writeln("End FileDumper.process([Job:" + getStringNull(DB.gu_job, "") + ", Atom:" + String.valueOf(oAtm.getInt(DB.pg_atom)) + "])"); DebugFile.decIdent(); } return oReplaced; }
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00
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Code Sample 1:
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(); } }
Code Sample 2:
public void testEmptyBlock_01() throws Exception { EXISchema corpus = EXISchemaFactoryTestUtil.getEXISchema("/compression/emptyBlock_01.xsd", getClass(), m_compilerErrors); Assert.assertEquals(0, m_compilerErrors.getTotalCount()); GrammarCache grammarCache = new GrammarCache(corpus, GrammarOptions.STRICT_OPTIONS); Transmogrifier encoder = new Transmogrifier(); EXIDecoder decoder = new EXIDecoder(31); Scanner scanner; InputSource inputSource; encoder.setOutputOptions(HeaderOptionsOutputType.lessSchemaId); encoder.setAlignmentType(AlignmentType.compress); encoder.setBlockSize(1); encoder.setEXISchema(grammarCache); ByteArrayOutputStream baos = new ByteArrayOutputStream(); encoder.setOutputStream(baos); URL url = resolveSystemIdAsURL("/compression/emptyBlock_01.xml"); inputSource = new InputSource(url.toString()); inputSource.setByteStream(url.openStream()); byte[] bts; int n_events; encoder.encode(inputSource); bts = baos.toByteArray(); decoder.setEXISchema(grammarCache); decoder.setInputStream(new ByteArrayInputStream(bts)); scanner = decoder.processHeader(); ArrayList<EXIEvent> exiEventList = new ArrayList<EXIEvent>(); EXIEvent exiEvent; n_events = 0; while ((exiEvent = scanner.nextEvent()) != null) { ++n_events; exiEventList.add(exiEvent); } Assert.assertEquals(11, n_events); Assert.assertEquals(1, ((ChannellingScanner) scanner).getBlockCount()); EventType eventType; EventTypeList eventTypeList; int pos = 0; exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_SD, exiEvent.getEventVariety()); eventType = exiEvent.getEventType(); Assert.assertSame(exiEvent, eventType); Assert.assertEquals(0, eventType.getIndex()); eventTypeList = eventType.getEventTypeList(); Assert.assertNull(eventTypeList.getEE()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_SE, exiEvent.getEventVariety()); Assert.assertEquals("root", exiEvent.getName()); Assert.assertEquals("", eventType.getURI()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_SE, exiEvent.getEventVariety()); Assert.assertEquals("parent", exiEvent.getName()); Assert.assertEquals("", eventType.getURI()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_SE, exiEvent.getEventVariety()); Assert.assertEquals("child", exiEvent.getName()); Assert.assertEquals("", eventType.getURI()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_CH, exiEvent.getEventVariety()); Assert.assertEquals("42", exiEvent.getCharacters().makeString()); int tp = ((EventTypeSchema) exiEvent.getEventType()).getSchemaSubstance(); Assert.assertEquals(EXISchemaConst.UNSIGNED_BYTE_TYPE, corpus.getSerialOfType(tp)); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_EE, exiEvent.getEventVariety()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_EE, exiEvent.getEventVariety()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_SE, exiEvent.getEventVariety()); Assert.assertEquals("adjunct", exiEvent.getName()); Assert.assertEquals("", exiEvent.getURI()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_EE, exiEvent.getEventVariety()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_EE, exiEvent.getEventVariety()); exiEvent = exiEventList.get(pos++); Assert.assertEquals(EXIEvent.EVENT_ED, exiEvent.getEventVariety()); }
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00
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Code Sample 1:
private void findFile() throws SchedulerException { java.io.InputStream f = null; String furl = null; File file = new File(getFileName()); if (!file.exists()) { URL url = classLoadHelper.getResource(getFileName()); if (url != null) { try { furl = URLDecoder.decode(url.getPath(), "UTF-8"); file = new File(furl); f = url.openStream(); } catch (java.io.UnsupportedEncodingException uee) { } catch (IOException ignor) { } } } else { try { f = new java.io.FileInputStream(file); } catch (FileNotFoundException e) { } } if (f == null && isFailOnFileNotFound()) { throw new SchedulerException("File named '" + getFileName() + "' does not exist. f == null && isFailOnFileNotFound()"); } else if (f == null) { getLog().warn("File named '" + getFileName() + "' does not exist. f == null"); } else { fileFound = true; try { if (furl != null) this.filePath = furl; else this.filePath = file.getAbsolutePath(); f.close(); } catch (IOException ioe) { getLog().warn("Error closing jobs file " + getFileName(), ioe); } } }
Code Sample 2:
@Algorithm(name = "EXT") public void execute() { Connection conn = null; try { Class.forName(jdbcDriver).newInstance(); conn = DriverManager.getConnection(jdbcUrl, username, password); conn.setAutoCommit(false); l.debug("Connected to the database"); Statement stmt = conn.createStatement(); l.debug(sql); ResultSet rs = stmt.executeQuery(sql); List<Map<String, String>> res = DbUtil.listFromRS(rs); if (null != res && !res.isEmpty()) { docs = new ArrayList<Doc>(); List<String> keys = new ArrayList<String>(); for (Map<String, String> map : res) { docs.add(convert(map)); String key = map.get(pk); keys.add(key); } String sql2 = updateSQL + " where " + pk + " in (" + CollectionUtil.toString(keys) + ")"; l.debug(sql2); stmt.executeUpdate(sql2); conn.commit(); } } catch (Exception e) { l.error(e.getMessage(), e); if (null != conn) { try { conn.rollback(); } catch (Exception ex) { l.error(ex.getMessage(), ex); } } throw new RuntimeException(e.getMessage()); } finally { try { if (null != conn) { conn.close(); l.debug("Disconnected from database"); } } catch (Exception ex) { l.error(ex.getMessage(), ex); } } if (null != docs && !docs.isEmpty()) { triggerEvent("EO"); } else { triggerEvent("EMPTY"); } }
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00
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Code Sample 1:
public synchronized int executeCommand(Vector<String> pvStatement) throws Exception { int ret = 0, i = 0; Statement stmt = null; String temp = ""; try { oConexion.setAutoCommit(false); stmt = oConexion.createStatement(); for (i = 0; i < pvStatement.size(); i++) { temp = (String) pvStatement.elementAt(i); ret += stmt.executeUpdate(temp); } oConexion.commit(); } catch (SQLException e) { oConexion.rollback(); throw e; } finally { stmt.close(); stmt = null; } return ret; }
Code Sample 2:
public static File copyFile(File fileToCopy, File copiedFile) { BufferedInputStream in = null; BufferedOutputStream outWriter = null; if (!copiedFile.exists()) { try { copiedFile.createNewFile(); } catch (IOException e1) { ExceptionHandlingService.INSTANCE.handleException(e1); return null; } } try { in = new BufferedInputStream(new FileInputStream(fileToCopy), 4096); outWriter = new BufferedOutputStream(new FileOutputStream(copiedFile), 4096); int c; while ((c = in.read()) != -1) outWriter.write(c); in.close(); outWriter.close(); } catch (FileNotFoundException e) { ExceptionHandlingService.INSTANCE.handleException(e); return null; } catch (IOException e) { ExceptionHandlingService.INSTANCE.handleException(e); return null; } return copiedFile; }
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11
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Code Sample 1:
public static Checksum checksum(File file, Checksum checksum) throws IOException { if (file.isDirectory()) { throw new IllegalArgumentException("Checksums can't be computed on directories"); } InputStream in = null; try { in = new CheckedInputStream(new FileInputStream(file), checksum); IOUtils.copy(in, new NullOutputStream()); } finally { IOUtils.closeQuietly(in); } return checksum; }
Code Sample 2:
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!"); }
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Code Sample 1:
private static void copyFile(String fromFile, String toFile) throws Exception { 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 { if (from != null) try { from.close(); } catch (IOException e) { ; } if (to != null) try { to.close(); } catch (IOException e) { ; } } }
Code Sample 2:
private static String makeTempTraceFile(String base) throws IOException { File temp = File.createTempFile(base, ".trace"); temp.deleteOnExit(); FileChannel dstChannel = new FileOutputStream(temp).getChannel(); FileChannel srcChannel = new FileInputStream(base + ".key").getChannel(); long size = dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); srcChannel = new FileInputStream(base + ".data").getChannel(); dstChannel.transferFrom(srcChannel, size, srcChannel.size()); srcChannel.close(); dstChannel.close(); return temp.getPath(); }
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Code Sample 1:
public static String encode(String arg) { if (arg == null) { arg = ""; } MessageDigest md5 = null; try { md5 = MessageDigest.getInstance("MD5"); md5.update(arg.getBytes(JavaCenterHome.JCH_CHARSET)); } catch (Exception e) { e.printStackTrace(); } return toHex(md5.digest()); }
Code Sample 2:
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() + ")"); } } }
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Code Sample 1:
static String fetchURLComposeExternPackageList(String urlpath, String pkglisturlpath) { String link = pkglisturlpath + "package-list"; try { boolean relative = isRelativePath(urlpath); readPackageList((new URL(link)).openStream(), urlpath, relative); } catch (MalformedURLException exc) { return getText("doclet.MalformedURL", link); } catch (IOException exc) { return getText("doclet.URL_error", link); } return null; }
Code Sample 2:
public static boolean copyDataToNewTable(EboContext p_eboctx, String srcTableName, String destTableName, String where, boolean log, int mode) throws boRuntimeException { srcTableName = srcTableName.toUpperCase(); destTableName = destTableName.toUpperCase(); Connection cn = null; Connection cndef = null; boolean ret = false; try { boolean srcexists = false; boolean destexists = false; final InitialContext ic = new InitialContext(); cn = p_eboctx.getConnectionData(); cndef = p_eboctx.getConnectionDef(); PreparedStatement pstm = cn.prepareStatement("SELECT TABLE_NAME FROM USER_TABLES WHERE TABLE_NAME=?"); pstm.setString(1, srcTableName); ResultSet rslt = pstm.executeQuery(); if (rslt.next()) { srcexists = true; } rslt.close(); pstm.setString(1, destTableName); rslt = pstm.executeQuery(); if (rslt.next()) { destexists = true; } if (!destexists) { rslt.close(); pstm.close(); pstm = cn.prepareStatement("SELECT VIEW_NAME FROM USER_VIEWS WHERE VIEW_NAME=?"); pstm.setString(1, destTableName); rslt = pstm.executeQuery(); if (rslt.next()) { CallableStatement cstm = cn.prepareCall("DROP VIEW " + destTableName); cstm.execute(); cstm.close(); } } rslt.close(); pstm.close(); if (srcexists && !destexists) { if (log) { logger.finest(LoggerMessageLocalizer.getMessage("CREATING_AND_COPY_DATA_FROM") + " [" + srcTableName + "] " + LoggerMessageLocalizer.getMessage("TO") + " [" + destTableName + "]"); } CallableStatement cstm = cn.prepareCall("CREATE TABLE " + destTableName + " AS SELECT * FROM " + srcTableName + " " + (((where != null) && (where.length() > 0)) ? (" WHERE " + where) : "")); cstm.execute(); cstm.close(); if (log) { logger.finest(LoggerMessageLocalizer.getMessage("UPDATING_NGTDIC")); } cn.commit(); ret = true; } else if (srcexists && destexists) { if (log) { logger.finest(LoggerMessageLocalizer.getMessage("COPY_DATA_FROM") + " [" + srcTableName + "] " + LoggerMessageLocalizer.getMessage("TO") + " [" + destTableName + "]"); } PreparedStatement pstm2 = cn.prepareStatement("SELECT COLUMN_NAME FROM USER_TAB_COLUMNS WHERE TABLE_NAME = ? "); pstm2.setString(1, destTableName); ResultSet rslt2 = pstm2.executeQuery(); StringBuffer fields = new StringBuffer(); PreparedStatement pstm3 = cn.prepareStatement("SELECT COLUMN_NAME FROM USER_TAB_COLUMNS WHERE TABLE_NAME = ? and COLUMN_NAME=?"); while (rslt2.next()) { pstm3.setString(1, srcTableName); pstm3.setString(2, rslt2.getString(1)); ResultSet rslt3 = pstm3.executeQuery(); if (rslt3.next()) { if (fields.length() > 0) { fields.append(','); } fields.append('"').append(rslt2.getString(1)).append('"'); } rslt3.close(); } pstm3.close(); rslt2.close(); pstm2.close(); CallableStatement cstm; int recs = 0; if ((mode == 0) || (mode == 1)) { cstm = cn.prepareCall("INSERT INTO " + destTableName + "( " + fields.toString() + " ) ( SELECT " + fields.toString() + " FROM " + srcTableName + " " + (((where != null) && (where.length() > 0)) ? (" WHERE " + where) : "") + ")"); recs = cstm.executeUpdate(); cstm.close(); if (log) { logger.finest(LoggerMessageLocalizer.getMessage("DONE") + " [" + recs + "] " + LoggerMessageLocalizer.getMessage("RECORDS_COPIED")); } } cn.commit(); ret = true; } } catch (Exception e) { try { cn.rollback(); } catch (Exception z) { throw new boRuntimeException("boBuildDB.moveTable", "BO-1304", z); } throw new boRuntimeException("boBuildDB.moveTable", "BO-1304", e); } finally { try { cn.close(); } catch (Exception e) { } try { cndef.close(); } catch (Exception e) { } } return ret; }
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Code Sample 1:
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"); } }
Code Sample 2:
private String generaHashMD5(String plainText) throws Exception { MessageDigest mdAlgorithm = MessageDigest.getInstance("MD5"); mdAlgorithm.update(plainText.getBytes(FirmaUtil.CHARSET)); byte[] digest = mdAlgorithm.digest(); return toHex(digest); }
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Code Sample 1:
protected void sort(int a) { int[] masiv = new int[a]; Random rand = new Random(); for (int i = 0; i <= a; i++) { masiv[i] = rand.nextInt(200); } int d; for (int j = 0; j < a; j++) { for (int i = 0; i < a; i++) { if (masiv[i] < masiv[i + 1]) { } else { d = masiv[i]; masiv[i] = masiv[i + 1]; masiv[i + 1] = d; } } } while (a != 0) { System.out.println("sort: " + masiv[a]); a--; } }
Code Sample 2:
public InputStream getResourceAsStream(String name) { if (debug >= 2) log("getResourceAsStream(" + name + ")"); InputStream stream = null; stream = findLoadedResource(name); if (stream != null) { if (debug >= 2) log(" --> Returning stream from cache"); return (stream); } if (delegate) { if (debug >= 3) log(" Delegating to parent classloader"); ClassLoader loader = parent; if (loader == null) loader = system; stream = loader.getResourceAsStream(name); if (stream != null) { if (debug >= 2) log(" --> Returning stream from parent"); return (stream); } } if (debug >= 3) log(" Searching local repositories"); URL url = findResource(name); if (url != null) { if (debug >= 2) log(" --> Returning stream from local"); try { return (url.openStream()); } catch (IOException e) { log("url.openStream(" + url.toString() + ")", e); return (null); } } if (!delegate) { if (debug >= 3) log(" Delegating to parent classloader"); ClassLoader loader = parent; if (loader == null) loader = system; stream = loader.getResourceAsStream(name); if (stream != null) { if (debug >= 2) log(" --> Returning stream from parent"); return (stream); } } if (debug >= 2) log(" --> Resource not found, returning null"); return (null); }
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Code Sample 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; }
Code Sample 2:
public Reader transform(Reader reader, Map<String, Object> parameterMap) { try { File file = File.createTempFile("srx2", ".srx"); file.deleteOnExit(); Writer writer = getWriter(getFileOutputStream(file.getAbsolutePath())); transform(reader, writer, parameterMap); writer.close(); Reader resultReader = getReader(getFileInputStream(file.getAbsolutePath())); return resultReader; } catch (IOException e) { throw new IORuntimeException(e); } }
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Code Sample 1:
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())); } }
Code Sample 2:
public static void main(String[] args) throws Exception { ClassPathXmlApplicationContext appContext = new ClassPathXmlApplicationContext("camel/exec-context.xml"); CamelContext context = appContext.getBean(CamelContext.class); Exchange exchange = new DefaultExchange(context); List<String> arg = new ArrayList<String>(); arg.add("/home/sumit/derby.log"); arg.add("helios:cameltesting/"); exchange.getIn().setHeader(ExecBinding.EXEC_COMMAND_ARGS, arg); Exchange res = context.createProducerTemplate().send("direct:input", exchange); ExecResult result = (ExecResult) res.getIn().getBody(); System.out.println(result.getExitValue()); System.out.println(result.getCommand()); if (result.getStderr() != null) { IOUtils.copy(result.getStderr(), new FileOutputStream(new File("/home/sumit/error.log"))); } if (result.getStdout() != null) { IOUtils.copy(result.getStdout(), new FileOutputStream(new File("/home/sumit/out.log"))); } appContext.close(); }
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Code Sample 1:
private void load() throws SQLException { Connection conn = null; Statement stmt = null; try { conn = FidoDataSource.getConnection(); conn.setAutoCommit(false); stmt = conn.createStatement(); ClearData.clearTables(stmt); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (100, 'Person')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (101, 'john')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (200, 'Dog')"); stmt.executeUpdate("insert into Objects (ObjectId, Description) values (201, 'johns dog')"); stmt.executeQuery("select setval('objects_objectid_seq', 1000)"); stmt.executeUpdate("insert into ClassLinkTypes (LinkName, LinkType) values ('hasa', 2)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (100, 'isa', 1)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (101, 'instance', 100)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (200, 'isa', 1)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (201, 'instance', 200)"); stmt.executeUpdate("insert into ObjectLinks (ObjectId, LinkName, LinkToObject) values (101, 'hasa', 201)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('LEFT-WALL', '1', 'QV+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('does', '1', 'HV+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('john', '1', 'S+ | DO-', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('a', '1', 'D+', 1)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('dog', '1', '[D-] & (S+ | DO-)', 200)"); stmt.executeUpdate("insert into Dictionary (Word, SenseNumber, GrammarString, ObjectId) values ('have', '1', 'S- & HV- & QV- & DO+', 1)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('S', 1)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('DO', 3)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('QV', 8)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('D', 10)"); stmt.executeUpdate("insert into GrammarLinks (LinkName, LinkType) values ('HV', 16)"); stmt.executeUpdate("insert into Articles (ArticleName, Dereference) values ('a', 2)"); stmt.executeUpdate("insert into FrameSlots (SlotName) values ('actor')"); stmt.executeUpdate("insert into FrameSlots (SlotName) values ('object')"); stmt.executeUpdate("insert into Verbs (VerbName, Type, SubjectSlot, IndirectObjectSlot, PredicateNounSlot) values ('have', 1, 'actor', '', 'object')"); stmt.executeUpdate("insert into ProperNouns (Noun, SenseNumber, ObjectId) values ('john', 1, 101)"); stmt.executeQuery("select setval('instructions_instructionid_seq', 1)"); stmt.executeUpdate("insert into Instructions (Type, ExecuteString, FrameSlot, Operator, LinkName, ObjectId, AttributeName) " + "values (3, 'set_return_status true', null, 0, null, null, null)"); stmt.executeUpdate("insert into Instructions (Type, ExecuteString, FrameSlot, Operator, LinkName, ObjectId, AttributeName) " + "values (3, 'set_return_status false', null, 0, null, null, null)"); stmt.executeUpdate("insert into Instructions (Type, ExecuteString, FrameSlot, Operator, LinkName, ObjectId, AttributeName) " + "values (2, '', 'actor', 1, 'hasa', 200, null)"); stmt.executeUpdate("insert into InstructionGroups (InstructionId, Rank, GroupInstruction) " + "values (4, 1, 2)"); stmt.executeUpdate("insert into InstructionGroups (InstructionId, Rank, GroupInstruction) " + "values (4, 2, 3)"); stmt.executeQuery("select setval('transactions_transactionid_seq', 1)"); stmt.executeUpdate("insert into Transactions (InstructionId, Description) values (4, 'have - question')"); stmt.executeQuery("select setval('verbtransactions_verbid_seq', 1)"); stmt.executeUpdate("insert into VerbTransactions (VerbString, MoodType, TransactionId) values ('have', 3, 2)"); stmt.executeUpdate("insert into VerbConstraints (VerbId, FrameSlot, ObjectId) values (2, 'actor', 100)"); stmt.executeUpdate("insert into VerbConstraints (VerbId, FrameSlot, ObjectId) values (2, 'object', 200)"); stmt.executeUpdate("update SystemProperties set value = 'Tutorial 2 Data' where name = 'DB Data Version'"); conn.commit(); } catch (SQLException e) { if (conn != null) conn.rollback(); throw e; } finally { if (stmt != null) stmt.close(); if (conn != null) conn.close(); } }
Code Sample 2:
public void removeBodyPart(int iPart) throws MessagingException, ArrayIndexOutOfBoundsException { if (DebugFile.trace) { DebugFile.writeln("Begin DBMimeMultipart.removeBodyPart(" + String.valueOf(iPart) + ")"); DebugFile.incIdent(); } DBMimeMessage oMsg = (DBMimeMessage) getParent(); DBFolder oFldr = ((DBFolder) oMsg.getFolder()); Statement oStmt = null; ResultSet oRSet = null; String sDisposition = null, sFileName = null; boolean bFound; try { oStmt = oFldr.getConnection().createStatement(ResultSet.TYPE_FORWARD_ONLY, ResultSet.CONCUR_READ_ONLY); if (DebugFile.trace) DebugFile.writeln("Statement.executeQuery(SELECT " + DB.id_disposition + "," + DB.file_name + " FROM " + DB.k_mime_parts + " WHERE " + DB.gu_mimemsg + "='" + oMsg.getMessageGuid() + "' AND " + DB.id_part + "=" + String.valueOf(iPart) + ")"); oRSet = oStmt.executeQuery("SELECT " + DB.id_disposition + "," + DB.file_name + " FROM " + DB.k_mime_parts + " WHERE " + DB.gu_mimemsg + "='" + oMsg.getMessageGuid() + "' AND " + DB.id_part + "=" + String.valueOf(iPart)); bFound = oRSet.next(); if (bFound) { sDisposition = oRSet.getString(1); if (oRSet.wasNull()) sDisposition = "inline"; sFileName = oRSet.getString(2); } oRSet.close(); oRSet = null; oStmt.close(); oStmt = null; if (!bFound) { if (DebugFile.trace) DebugFile.decIdent(); throw new MessagingException("Part not found"); } if (!sDisposition.equals("reference") && !sDisposition.equals("pointer")) { if (DebugFile.trace) DebugFile.decIdent(); throw new MessagingException("Only parts with reference or pointer disposition can be removed from a message"); } else { if (sDisposition.equals("reference")) { try { File oRef = new File(sFileName); if (oRef.exists()) oRef.delete(); } catch (SecurityException se) { if (DebugFile.trace) DebugFile.writeln("SecurityException " + sFileName + " " + se.getMessage()); if (DebugFile.trace) DebugFile.decIdent(); throw new MessagingException("SecurityException " + sFileName + " " + se.getMessage(), se); } } oStmt = oFldr.getConnection().createStatement(); if (DebugFile.trace) DebugFile.writeln("Statement.executeUpdate(DELETE FROM " + DB.k_mime_parts + " WHERE " + DB.gu_mimemsg + "='" + oMsg.getMessageGuid() + "' AND " + DB.id_part + "=" + String.valueOf(iPart) + ")"); oStmt.executeUpdate("DELETE FROM " + DB.k_mime_parts + " WHERE " + DB.gu_mimemsg + "='" + oMsg.getMessageGuid() + "' AND " + DB.id_part + "=" + String.valueOf(iPart)); oStmt.close(); oStmt = null; oFldr.getConnection().commit(); } } catch (SQLException sqle) { if (oRSet != null) { try { oRSet.close(); } catch (Exception ignore) { } } if (oStmt != null) { try { oStmt.close(); } catch (Exception ignore) { } } try { oFldr.getConnection().rollback(); } catch (Exception ignore) { } if (DebugFile.trace) DebugFile.decIdent(); throw new MessagingException(sqle.getMessage(), sqle); } if (DebugFile.trace) { DebugFile.decIdent(); DebugFile.writeln("End DBMimeMultipart.removeBodyPart()"); } }
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Code Sample 1:
@Test public void testClient() throws ClientProtocolException, IOException { HttpClient httpclient = new DefaultHttpClient(); HttpHost proxy = new HttpHost("127.0.0.1", 1280, "http"); HttpGet httpget = new HttpGet("http://a.b.c.d/pdn/"); httpclient.getParams().setParameter(ConnRoutePNames.DEFAULT_PROXY, proxy); System.out.println("executing request " + httpget.getURI()); HttpResponse response = httpclient.execute(httpget); HttpEntity entity = response.getEntity(); System.out.println("----------------------------------------"); System.out.println(response.getStatusLine()); if (entity != null) { System.out.println("Response content length: " + entity.getContentLength()); } InputStream is = response.getEntity().getContent(); readInputStream(is); System.out.println("----------------------------------------"); httpget.abort(); httpclient.getConnectionManager().shutdown(); }
Code Sample 2:
public String sruRead(String initialURL) { out('\n'); out(" trying: "); out(initialURL); out('\n'); numTests++; URL url = null; try { url = new URL(initialURL); } catch (java.net.MalformedURLException e) { out("</pre><pre class='red'>"); out("test failed: using URL: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); return null; } HttpURLConnection huc = null; try { huc = (HttpURLConnection) url.openConnection(); } catch (IOException e) { out("</pre><pre class='red'>"); out("test failed: using URL: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); return null; } String contentType = huc.getContentType(); if (contentType == null || (contentType.indexOf("text/xml") < 0 && contentType.indexOf("application/xml") < 0)) { out(" ** Warning: Content-Type not set to text/xml or application/xml"); out('\n'); out(" Content-type: "); out(contentType); out('\n'); numWarns++; } InputStream urlStream = null; try { urlStream = huc.getInputStream(); } catch (java.io.IOException e) { out("</pre><pre class='red'>"); out("test failed: opening URL: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); 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) { out("</pre><pre class='red'>"); out("test failed: reading first line of response: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); return null; } if (inputLine == null) { out("</pre><pre class='red'>"); out("test failed: No input read from URL"); out('\n'); out("</pre><pre>"); 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(); while (inputLine.length() == 0) inputLine = in.readLine(); } catch (java.io.IOException e) { out("</pre><pre class='red'>"); out("test failed: reading response: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); return null; } if (inputLine.startsWith("<?xml-stylesheet ")) { offset = inputLine.indexOf("href="); href = (inputLine.substring(inputLine.indexOf("href=") + 6)); href = href.substring(0, href.indexOf('"')); transformer = (Transformer) transformers.get(href); if (stylesheets.get(href) == null) try { out(" reading stylesheet: "); out(href); out('\n'); out(" from source: "); out(url.toString()); out('\n'); StreamSource source = new StreamSource(url.toString()); TransformerFactory tFactory = TransformerFactory.newInstance(); Source stylesht = tFactory.getAssociatedStylesheet(source, null, null, null); transformer = tFactory.newTransformer(stylesht); transformers.put(href, transformer); } catch (Exception e) { e.printStackTrace(); out("</pre><pre class='red'>"); out("unable to load stylesheet: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); } stylesheets.put(href, href); } else content.append(inputLine); } try { while ((inputLine = in.readLine()) != null) content.append(inputLine); } catch (java.io.IOException e) { out("</pre><pre class='red'>"); out("test failed: reading response: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); 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)); out(" successfully applied stylesheet '"); out(href); out("'"); out('\n'); } catch (javax.xml.transform.TransformerException e) { out("</pre><pre class='red'>"); out("unable to apply stylesheet '"); out(href); out("'to response: "); out(e.getMessage()); out('\n'); out("</pre><pre>"); e.printStackTrace(); } } return contentStr; }
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Code Sample 1:
public static void doVersionCheck(View view) { view.showWaitCursor(); try { URL url = new URL(jEdit.getProperty("version-check.url")); InputStream in = url.openStream(); BufferedReader bin = new BufferedReader(new InputStreamReader(in)); String line; String develBuild = null; String stableBuild = null; while ((line = bin.readLine()) != null) { if (line.startsWith(".build")) develBuild = line.substring(6).trim(); else if (line.startsWith(".stablebuild")) stableBuild = line.substring(12).trim(); } bin.close(); if (develBuild != null && stableBuild != null) { doVersionCheck(view, stableBuild, develBuild); } } catch (IOException e) { String[] args = { jEdit.getProperty("version-check.url"), e.toString() }; GUIUtilities.error(view, "read-error", args); } view.hideWaitCursor(); }
Code Sample 2:
public void SetRoles(Connection conn, User user, String[] roles) throws NpsException { if (!IsSysAdmin() && !IsLocalAdmin()) throw new NpsException(ErrorHelper.ACCESS_NOPRIVILEGE); PreparedStatement pstmt = null; ResultSet rs = null; try { String sql = "delete from userrole where userid=?"; pstmt = conn.prepareStatement(sql); pstmt.setString(1, user.id); pstmt.executeUpdate(); if (roles != null && roles.length > 0) { try { pstmt.close(); } catch (Exception e1) { } sql = "insert into userrole(userid,roleid) values(?,?)"; pstmt = conn.prepareStatement(sql); for (int i = 0; i < roles.length; i++) { if (roles[i] != null && roles[i].length() > 0) { pstmt.setString(1, user.GetId()); pstmt.setString(2, roles[i]); pstmt.executeUpdate(); } } } try { pstmt.close(); } catch (Exception e1) { } if (user.roles_by_name != null) user.roles_by_name.clear(); if (user.roles_by_id != null) user.roles_by_id.clear(); if (roles != null && roles.length > 0) { sql = "select b.* from UserRole a,Role b where a.roleid = b.id and a.userid=?"; pstmt = conn.prepareStatement(sql); pstmt.setString(1, user.id); rs = pstmt.executeQuery(); while (rs.next()) { if (user.roles_by_name == null) user.roles_by_name = new Hashtable(); if (user.roles_by_id == null) user.roles_by_id = new Hashtable(); user.roles_by_name.put(rs.getString("name"), rs.getString("id")); user.roles_by_id.put(rs.getString("id"), rs.getString("name")); } } } catch (Exception e) { try { conn.rollback(); } catch (Exception e1) { } com.microfly.util.DefaultLog.error(e); } finally { if (rs != null) try { rs.close(); } catch (Exception e) { } if (pstmt != null) try { pstmt.close(); } catch (Exception e1) { } } }
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Code Sample 1:
public static String post(String actionUrl, Map<String, String> params) { HttpPost httpPost = new HttpPost(actionUrl); List<NameValuePair> list = new ArrayList<NameValuePair>(); for (Map.Entry<String, String> entry : params.entrySet()) { list.add(new BasicNameValuePair(entry.getKey(), entry.getValue())); } try { httpPost.setEntity(new UrlEncodedFormEntity(list, HTTP.UTF_8)); HttpResponse httpResponse = new DefaultHttpClient().execute(httpPost); if (httpResponse.getStatusLine().getStatusCode() == 200) { return EntityUtils.toString(httpResponse.getEntity()); } } catch (Exception e) { throw new RuntimeException(e); } return null; }
Code Sample 2:
public int executeUpdateJT(String sql, Object[][] paramsList) { Connection connection = null; connection = this.getConnection(); try { connection.setAutoCommit(false); } catch (SQLException e1) { e1.printStackTrace(); } PreparedStatement preparedStatement = null; try { preparedStatement = connection.prepareStatement(sql); for (int i = 0; i < paramsList.length; i++) { if (connection != null && !connection.isClosed()) { InputStream is = null; if (paramsList[i].length > 0) { for (int j = 0; j < paramsList[i].length; j++) { Object obj = paramsList[i][j]; if (obj.getClass().equals(Class.forName("java.io.File"))) { File file = (File) obj; is = new FileInputStream(file); preparedStatement.setBinaryStream(j + 1, is, (int) file.length()); } else if (obj.getClass().equals(Class.forName("java.util.Date"))) { java.text.SimpleDateFormat sdf = new SimpleDateFormat("yyyy-MM-dd HH:mm:ss"); preparedStatement.setString(j + 1, sdf.format((Date) obj)); } else { preparedStatement.setObject(j + 1, obj); } } } preparedStatement.executeUpdate(); if (is != null) { is.close(); } ; } } } catch (Exception e) { System.out.println("发生错误，数据回滚！"); e.printStackTrace(); try { connection.rollback(); return 0; } catch (SQLException e1) { e1.printStackTrace(); } } try { connection.commit(); return 1; } catch (SQLException e) { e.printStackTrace(); } finally { try { preparedStatement.close(); connection.close(); } catch (SQLException e) { e.printStackTrace(); } try { connection.close(); } catch (SQLException e) { log.error("未能正确关闭数据库连接！", e); System.out.println("未能正确关闭数据库连接！"); e.printStackTrace(); } } return -1; }
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Code Sample 1:
public static void main(String[] args) throws Exception { File rootDir = new File("C:\\dev\\workspace_fgd\\gouvqc_crggid\\WebContent\\WEB-INF\\upload"); File storeDir = new File(rootDir, "storeDir"); File workDir = new File(rootDir, "workDir"); LoggerFacade loggerFacade = new CommonsLoggingLogger(logger); final FileResourceManager frm = new SmbFileResourceManager(storeDir.getPath(), workDir.getPath(), true, loggerFacade); frm.start(); final String resourceId = "811375c8-7cae-4429-9a0e-9222f47dab45"; { if (!frm.resourceExists(resourceId)) { String txId = frm.generatedUniqueTxId(); frm.startTransaction(txId); FileInputStream inputStream = new FileInputStream(resourceId); frm.createResource(txId, resourceId); OutputStream outputStream = frm.writeResource(txId, resourceId); IOUtils.copy(inputStream, outputStream); IOUtils.closeQuietly(inputStream); IOUtils.closeQuietly(outputStream); frm.prepareTransaction(txId); frm.commitTransaction(txId); } } for (int i = 0; i < 30; i++) { final int index = i; new Thread() { @Override public void run() { try { String txId = frm.generatedUniqueTxId(); frm.startTransaction(txId); InputStream inputStream = frm.readResource(resourceId); frm.prepareTransaction(txId); frm.commitTransaction(txId); synchronized (System.out) { System.out.println(index + " ***********************" + txId + " (début)"); } String contenu = TikaUtils.getParsedContent(inputStream, "file.pdf"); synchronized (System.out) { System.out.println(index + " ***********************" + txId + " (fin)"); } } catch (ResourceManagerSystemException e) { throw new RuntimeException(e); } catch (ResourceManagerException e) { throw new RuntimeException(e); } catch (TikaException e) { throw new RuntimeException(e); } catch (IOException e) { throw new RuntimeException(e); } } }.start(); } Thread.sleep(60000); frm.stop(FileResourceManager.SHUTDOWN_MODE_NORMAL); }
Code Sample 2:
public static void copyFile(File inputFile, File outputFile) throws IOException { BufferedInputStream fr = new BufferedInputStream(new FileInputStream(inputFile)); BufferedOutputStream fw = new BufferedOutputStream(new FileOutputStream(outputFile)); byte[] buf = new byte[8192]; int n; while ((n = fr.read(buf)) >= 0) fw.write(buf, 0, n); fr.close(); fw.close(); }
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11
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Code Sample 1:
public static void copyFile(FileInputStream source, FileOutputStream target) throws Exception { FileChannel inChannel = source.getChannel(); FileChannel outChannel = target.getChannel(); try { inChannel.transferTo(0, inChannel.size(), outChannel); } catch (IOException e) { throw e; } finally { if (inChannel != null) inChannel.close(); if (outChannel != null) outChannel.close(); } }
Code Sample 2:
public File copyFile(File in, File out) throws IOException { FileChannel inChannel = new FileInputStream(in).getChannel(); FileChannel outChannel = new FileOutputStream(out).getChannel(); copyChannel(inChannel, outChannel); return out; }
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Code Sample 1:
private static void loadProperties(Properties props, String res, boolean warnIfNotFound) throws IOException { log.debug("Reading properties from resource " + res); URL url = ResourceFileStorageFactory.class.getResource(res); if (null == url) { if (warnIfNotFound) { log.warn("Resource " + res + " was not found"); } else { log.debug("Resource " + res + " was not found"); } } else { InputStream in = url.openStream(); try { props.load(in); } finally { in.close(); } } }
Code Sample 2:
public IStatus runInUIThread(IProgressMonitor monitor) { monitor.beginTask(Strings.MSG_CONNECT_SERVER, 3); InputStream in = null; try { URL url = createOpenUrl(resource, pref); if (url != null) { URLConnection con = url.openConnection(); monitor.worked(1); monitor.setTaskName(Strings.MSG_WAIT_FOR_SERVER); con.connect(); in = con.getInputStream(); in.read(); monitor.worked(1); monitor.setTaskName(NLS.bind(Strings.MSG_OPEN_URL, url)); open(url, resource.getProject(), pref); monitor.worked(1); } } catch (ConnectException con) { if (count < 3) { ConnectAndOpenJob job = new ConnectAndOpenJob(resource, pref, ++count); job.schedule(1000L); } else { Activator.log(con); } } catch (Exception e) { Activator.log(e); } finally { Streams.close(in); monitor.done(); } return Status.OK_STATUS; }
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11
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Code Sample 1:
@Override public InputStream getInputStream() throws IOException { if (dfos == null) { int deferredOutputStreamThreshold = Config.getInstance().getDeferredOutputStreamThreshold(); dfos = new DeferredFileOutputStream(deferredOutputStreamThreshold, Definitions.PROJECT_NAME, "." + Definitions.TMP_EXTENSION); try { IOUtils.copy(is, dfos); } finally { dfos.close(); } } return dfos.getDeferredInputStream(); }
Code Sample 2:
protected void setUp() throws Exception { testOutputDirectory = new File(getClass().getResource("/").getPath()); zipFile = new File(this.testOutputDirectory, "/plugin.zip"); zipOutputDirectory = new File(this.testOutputDirectory, "zip"); zipOutputDirectory.mkdir(); logger.fine("zip dir created"); ZipOutputStream zos = new ZipOutputStream(new FileOutputStream(zipFile)); zos.putNextEntry(new ZipEntry("css/")); zos.putNextEntry(new ZipEntry("css/system.properties")); System.getProperties().store(zos, null); zos.closeEntry(); zos.putNextEntry(new ZipEntry("js/")); zos.putNextEntry(new ZipEntry("js/system.properties")); System.getProperties().store(zos, null); zos.closeEntry(); zos.putNextEntry(new ZipEntry("WEB-INF/")); zos.putNextEntry(new ZipEntry("WEB-INF/classes/")); zos.putNextEntry(new ZipEntry("WEB-INF/classes/system.properties")); System.getProperties().store(zos, null); zos.closeEntry(); zos.putNextEntry(new ZipEntry("WEB-INF/lib/")); zos.putNextEntry(new ZipEntry("WEB-INF/lib/mylib.jar")); File jarFile = new File(this.testOutputDirectory.getPath() + "/mylib.jar"); JarOutputStream jos = new JarOutputStream(new FileOutputStream(jarFile)); jos.putNextEntry(new ZipEntry("vqwiki/")); jos.putNextEntry(new ZipEntry("vqwiki/plugins/")); jos.putNextEntry(new ZipEntry("vqwiki/plugins/system.properties")); System.getProperties().store(jos, null); jos.closeEntry(); jos.close(); IOUtils.copy(new FileInputStream(jarFile), zos); zos.closeEntry(); zos.close(); jarFile.delete(); }
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Code Sample 1:
public void run() { long starttime = (new Date()).getTime(); Matcher m = Pattern.compile("(\\S+);(\\d+)").matcher(Destination); boolean completed = false; if (OutFile.length() > IncommingProcessor.MaxPayload) { logger.warn("Payload is too large!"); close(); } else { if (m.find()) { Runnable cl = new Runnable() { public void run() { WaitToClose(); } }; Thread t = new Thread(cl); t.start(); S = null; try { String ip = m.group(1); int port = Integer.valueOf(m.group(2)); SerpentEngine eng = new SerpentEngine(); byte[] keybytes = new byte[eng.getBlockSize()]; byte[] ivbytes = new byte[eng.getBlockSize()]; Random.nextBytes(keybytes); Random.nextBytes(ivbytes); KeyParameter keyparm = new KeyParameter(keybytes); ParametersWithIV keyivparm = new ParametersWithIV(keyparm, ivbytes); byte[] parmbytes = BCUtils.writeParametersWithIV(keyivparm); OAEPEncoding enc = new OAEPEncoding(new ElGamalEngine(), new RIPEMD128Digest()); enc.init(true, PublicKey); byte[] encbytes = enc.encodeBlock(parmbytes, 0, parmbytes.length); PaddedBufferedBlockCipher cipher = new PaddedBufferedBlockCipher(new CBCBlockCipher(new SerpentEngine())); cipher.init(true, keyivparm); byte[] inbuffer = new byte[128]; byte[] outbuffer = new byte[256]; int readlen = 0; int cryptlen = 0; FileInputStream fis = new FileInputStream(OutFile); FileOutputStream fos = new FileOutputStream(TmpFile); readlen = fis.read(inbuffer); while (readlen >= 0) { if (readlen > 0) { cryptlen = cipher.processBytes(inbuffer, 0, readlen, outbuffer, 0); fos.write(outbuffer, 0, cryptlen); } readlen = fis.read(inbuffer); } cryptlen = cipher.doFinal(outbuffer, 0); if (cryptlen > 0) { fos.write(outbuffer, 0, cryptlen); } fos.close(); fis.close(); S = new Socket(ip, port); DataOutputStream dos = new DataOutputStream(S.getOutputStream()); dos.writeInt(encbytes.length); dos.write(encbytes); dos.writeLong(TmpFile.length()); fis = new FileInputStream(TmpFile); readlen = fis.read(inbuffer); while (readlen >= 0) { dos.write(inbuffer, 0, readlen); readlen = fis.read(inbuffer); } DataInputStream dis = new DataInputStream(S.getInputStream()); byte[] encipbytes = StreamUtils.readBytes(dis); cipher.init(false, keyivparm); byte[] decipbytes = new byte[encipbytes.length]; int len = cipher.processBytes(encipbytes, 0, encipbytes.length, decipbytes, 0); len += cipher.doFinal(decipbytes, len); byte[] realbytes = new byte[len]; System.arraycopy(decipbytes, 0, realbytes, 0, len); String ipstr = new String(realbytes, "ISO-8859-1"); Callback.Success(ipstr); completed = true; dos.write(0); dos.flush(); close(); } catch (Exception e) { close(); if (!completed) { e.printStackTrace(); Callback.Fail(e.getMessage()); } } } else { close(); logger.warn("Improper destination string. " + Destination); Callback.Fail("Improper destination string. " + Destination); } } CloseWait(); long newtime = (new Date()).getTime(); long timediff = newtime - starttime; logger.debug("Outgoing processor took: " + timediff); }
Code Sample 2:
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!"); }
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Code Sample 1:
private File prepareFileForUpload(File source, String s3key) throws IOException { File tmp = File.createTempFile("dirsync", ".tmp"); tmp.deleteOnExit(); InputStream in = null; OutputStream out = null; try { in = new FileInputStream(source); out = new DeflaterOutputStream(new CryptOutputStream(new FileOutputStream(tmp), cipher, getDataEncryptionKey())); IOUtils.copy(in, out); in.close(); out.close(); return tmp; } finally { IOUtils.closeQuietly(in); IOUtils.closeQuietly(out); } }
Code Sample 2:
public void viewFile(int file_nx) { FTPClient ftp = new FTPClient(); boolean error = false; try { int reply; ftp.connect("tgftp.nws.noaa.gov"); ftp.login("anonymous", ""); Log.d("WXDroid", "Connected to tgftp.nws.noaa.gov."); Log.d("WXDroid", ftp.getReplyString()); reply = ftp.getReplyCode(); if (!FTPReply.isPositiveCompletion(reply)) { ftp.disconnect(); System.err.println("FTP server refused connection."); System.exit(1); } ftp.changeWorkingDirectory("fax"); Log.d("WXDroid", "working directory: " + ftp.printWorkingDirectory()); ftp.setFileType(FTPClient.BINARY_FILE_TYPE); InputStream img_file = ftp.retrieveFileStream("PYAA10.gif"); String storage_state = Environment.getExternalStorageState(); if (storage_state.contains("mounted")) { String filepath = Environment.getExternalStorageDirectory().getAbsolutePath() + "/NOAAWX/"; File imageDirectory = new File(filepath); File local_file = new File(filepath + "PYAA10.gif"); OutputStream out = new FileOutputStream(local_file); byte[] buffer = new byte[1024]; int count; while ((count = img_file.read(buffer)) != -1) { if (Thread.interrupted() == true) { String functionName = Thread.currentThread().getStackTrace()[2].getMethodName() + "()"; throw new InterruptedException("The function " + functionName + " was interrupted."); } out.write(buffer, 0, count); } wxDroid.showImage(); out.flush(); out.close(); img_file.close(); Log.d("WXDroid", "file saved: " + filepath + " " + local_file); } else { Log.d("WXDroid", "The SD card is not mounted"); } ftp.logout(); ftp.disconnect(); } catch (IOException e) { error = true; e.printStackTrace(); } catch (InterruptedException e) { e.printStackTrace(); } finally { if (ftp.isConnected()) { try { ftp.disconnect(); } catch (IOException ioe) { } } } }
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Code Sample 1:
private static byte[] sha2(String... data) { byte[] digest = new byte[32]; StringBuilder buffer = new StringBuilder(); for (String s : data) { buffer.append(s); } MessageDigest sha256 = null; try { sha256 = MessageDigest.getInstance("SHA-256"); } catch (NoSuchAlgorithmException ex) { assert false; } sha256.update(buffer.toString().getBytes()); try { sha256.digest(digest, 0, digest.length); } catch (DigestException ex) { assert false; } return digest; }
Code Sample 2:
public String setContent(URL url, String inputdata) { String content = ""; try { HttpURLConnection connection = (HttpURLConnection) url.openConnection(); connection.setDoOutput(true); connection.setRequestMethod("POST"); connection.connect(); OutputStreamWriter out = new OutputStreamWriter(connection.getOutputStream()); out.write(inputdata); out.flush(); BufferedReader in = new BufferedReader(new InputStreamReader(connection.getInputStream())); String strLine = ""; while ((strLine = in.readLine()) != null) { content = content + strLine; } in.close(); out.close(); } catch (IOException e) { Logger.getLogger(this.getClass().getName()).log(Level.SEVERE, "Problem writing to " + url + " content " + inputdata, e); } return content; }
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Code Sample 1:
protected File getFile(NameCategory category) throws IOException { File home = new File(System.getProperty("user.dir")); String fileName = String.format("%s.txt", category); File file = new File(home, fileName); if (file.exists()) { return file; } else { URL url = DefaultNameGenerator.class.getResource("/sc/common/" + fileName); if (url == null) { throw new IllegalStateException(String.format("Cannot find resource at %s", fileName)); } else { InputStream in = url.openStream(); try { BufferedOutputStream out = new BufferedOutputStream(new FileOutputStream(file)); try { IOUtils.copy(in, out); } finally { out.close(); } } finally { in.close(); } return file; } } }
Code Sample 2:
public int extract() throws Exception { int count = 0; if (VERBOSE) System.out.println("IAAE:Extractr.extract: getting ready to extract " + getArtDir().toString()); ITCFileFilter iff = new ITCFileFilter(); RecursiveFileIterator rfi = new RecursiveFileIterator(getArtDir(), iff); FileTypeDeterminer ftd = new FileTypeDeterminer(); File artFile = null; File targetFile = null; broadcastStart(); while (rfi.hasMoreElements()) { artFile = (File) rfi.nextElement(); targetFile = getTargetFile(artFile); if (VERBOSE) System.out.println("IAAE:Extractr.extract: working ont " + artFile.toString()); BufferedInputStream in = null; BufferedOutputStream out = null; try { in = new BufferedInputStream((new FileInputStream(artFile))); out = new BufferedOutputStream((new FileOutputStream(targetFile))); byte[] buffer = new byte[10240]; int read = 0; int total = 0; read = in.read(buffer); while (read != -1) { if ((total <= 491) && (read > 491)) { out.write(buffer, 492, (read - 492)); } else if ((total <= 491) && (read <= 491)) { } else { out.write(buffer, 0, read); } total = total + read; read = in.read(buffer); } } catch (Exception e) { e.printStackTrace(); broadcastFail(); } finally { in.close(); out.close(); } broadcastSuccess(); count++; } broadcastDone(); return count; }
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Code Sample 1:
public static String getContent(String path, String encoding) throws IOException { URL url = new URL(path); URLConnection conn = url.openConnection(); conn.setDoOutput(true); InputStream inputStream = conn.getInputStream(); InputStreamReader isr = new InputStreamReader(inputStream, encoding); StringBuffer sb = new StringBuffer(); BufferedReader in = new BufferedReader(isr); String inputLine; while ((inputLine = in.readLine()) != null) { sb.append(inputLine); sb.append("\n"); } return sb.toString(); }
Code Sample 2:
public String getClass(EmeraldjbBean eb) throws EmeraldjbException { Entity entity = (Entity) eb; StringBuffer sb = new StringBuffer(); String myPackage = getPackageName(eb); sb.append("package " + myPackage + ";\n"); sb.append("\n"); DaoValuesGenerator valgen = new DaoValuesGenerator(); String values_class_name = valgen.getClassName(entity); sb.append("\n"); List importList = new Vector(); importList.add("java.io.FileOutputStream;"); importList.add("java.io.FileInputStream;"); importList.add("java.io.DataInputStream;"); importList.add("java.io.DataOutputStream;"); importList.add("java.io.IOException;"); importList.add("java.sql.Date;"); importList.add(valgen.getPackageName(eb) + "." + values_class_name + ";"); Iterator it = importList.iterator(); while (it.hasNext()) { String importName = (String) it.next(); sb.append("import " + importName + "\n"); } sb.append("\n"); String proto_version = entity.getPatternValue(GeneratorConst.PATTERN_STREAM_PROTO_VERSION, "1"); String streamer_class_name = getClassName(entity); sb.append("public class " + streamer_class_name + "\n"); sb.append("{" + "\n public static final int PROTO_VERSION=" + proto_version + ";"); sb.append("\n\n"); StringBuffer f_writer = new StringBuffer(); StringBuffer f_reader = new StringBuffer(); boolean has_times = false; boolean has_strings = false; it = entity.getMembers().iterator(); while (it.hasNext()) { Member member = (Member) it.next(); String nm = member.getName(); String getter = "obj." + methodGenerator.getMethodName(DaoGeneratorUtils.METHOD_GET, member); String setter = "obj." + methodGenerator.getMethodName(DaoGeneratorUtils.METHOD_SET, member); String pad = " "; JTypeBase gen_type = EmdFactory.getJTypeFactory().getJavaType(member.getType()); f_writer.append(gen_type.getToBinaryCode(pad, "dos", getter + "()")); f_reader.append(gen_type.getFromBinaryCode(pad, "din", setter)); } String reader_vars = ""; sb.append("\n public static void writeToFile(String file_nm, " + values_class_name + " obj) throws IOException" + "\n {" + "\n if (file_nm==null || file_nm.length()==0) throw new IOException(\"Bad file name (null or zero length)\");" + "\n if (obj==null) throw new IOException(\"Bad value object parameter, cannot write null object to file\");" + "\n FileOutputStream fos = new FileOutputStream(file_nm);" + "\n DataOutputStream dos = new DataOutputStream(fos);" + "\n writeStream(dos, obj);" + "\n fos.close();" + "\n } // end of writeToFile" + "\n" + "\n public static void readFromFile(String file_nm, " + values_class_name + " obj) throws IOException" + "\n {" + "\n if (file_nm==null || file_nm.length()==0) throw new IOException(\"Bad file name (null or zero length)\");" + "\n if (obj==null) throw new IOException(\"Bad value object parameter, cannot write null object to file\");" + "\n FileInputStream fis = new FileInputStream(file_nm);" + "\n DataInputStream dis = new DataInputStream(fis);" + "\n readStream(dis, obj);" + "\n fis.close();" + "\n } // end of readFromFile" + "\n" + "\n public static void writeStream(DataOutputStream dos, " + values_class_name + " obj) throws IOException" + "\n {" + "\n dos.writeByte(PROTO_VERSION);" + "\n " + f_writer + "\n } // end of writeStream" + "\n" + "\n public static void readStream(DataInputStream din, " + values_class_name + " obj) throws IOException" + "\n {" + "\n int proto_version = din.readByte();" + "\n if (proto_version==" + proto_version + ") readStreamV1(din,obj);" + "\n } // end of readStream" + "\n" + "\n public static void readStreamV1(DataInputStream din, " + values_class_name + " obj) throws IOException" + "\n {" + reader_vars + f_reader + "\n } // end of readStreamV1" + "\n" + "\n} // end of classs" + "\n\n" + "\n//**************" + "\n// End of file" + "\n//**************"); return sb.toString(); }
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Code Sample 1:
private void doLogin(String password) throws LoginFailedException, IncorrectPasswordException { final long mgr = Constants.MANAGER; Data data, response; try { response = sendAndWait(new Request(mgr)).get(0); MessageDigest md; try { md = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { throw new RuntimeException("MD5 hash not supported."); } byte[] challenge = response.getBytes(); md.update(challenge); md.update(password.getBytes(Data.STRING_ENCODING)); try { data = Data.valueOf(md.digest()); response = sendAndWait(new Request(mgr).add(0, data)).get(0); } catch (ExecutionException ex) { throw new IncorrectPasswordException(); } setLoginMessage(response.getString()); response = sendAndWait(new Request(mgr).add(0, getLoginData())).get(0); ID = response.getWord(); registerSettings(); } catch (InterruptedException ex) { throw new LoginFailedException(ex); } catch (ExecutionException ex) { throw new LoginFailedException(ex); } catch (IOException ex) { throw new LoginFailedException(ex); } }
Code Sample 2:
public static String sha1(String in) { MessageDigest md = null; try { md = MessageDigest.getInstance("SHA-1"); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } byte[] data = new byte[40]; try { md.update(in.getBytes("iso-8859-1"), 0, in.length()); } catch (UnsupportedEncodingException e) { e.printStackTrace(); } data = md.digest(); return HexidecimalUtilities.convertFromByteArrayToHex(data); }
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Code Sample 1:
private void connectAndLogin() throws SocketException, IOException, ClassNotFoundException, SQLException, FileNotFoundException { lastOperationTime = System.currentTimeMillis(); exit(); ftp = new FTPClient(); ftp.connect(SERVER); ftp.login(USERNAME, PASSWORD); ftp.enterLocalPassiveMode(); ftp.setFileType(FTP.BINARY_FILE_TYPE); System.out.println("Connected to " + SERVER + "."); db = new DB(propertiesPath); }
Code Sample 2:
public boolean consolidateCrossrefGet(BiblioItem bib, ArrayList<BiblioItem> bib2) throws Exception { boolean result = false; String doi = bib.getDOI(); String aut = bib.getFirstAuthorSurname(); String title = bib.getTitle(); String firstPage = null; String pageRange = bib.getPageRange(); int beginPage = bib.getBeginPage(); if (beginPage != -1) { firstPage = "" + beginPage; } else if (pageRange != null) { StringTokenizer st = new StringTokenizer(pageRange, "--"); if (st.countTokens() == 2) { firstPage = st.nextToken(); } else if (st.countTokens() == 1) firstPage = pageRange; } if (aut != null) { aut = TextUtilities.removeAccents(aut); } if (title != null) { title = TextUtilities.removeAccents(title); } if (doi != null) { if (doi.startsWith("doi:") | doi.startsWith("DOI:")) { doi.substring(4, doi.length()); doi = doi.trim(); } doi = doi.replace(" ", ""); String xml = null; if (cCon != null) { PreparedStatement pstmt = null; try { pstmt = cCon.prepareStatement(QUERY_CROSSREF_SQL3); pstmt.setString(1, doi); ResultSet res = pstmt.executeQuery(); if (res.next()) { xml = res.getString(1); } res.close(); pstmt.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF CACHE"); se.printStackTrace(); } finally { try { if (pstmt != null) pstmt.close(); } catch (SQLException se) { } } if (xml != null) { InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser parser = spf.newSAXParser(); parser.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } } } if (xml == null) { String subpath = String.format(DOI_BASE_QUERY, crossref_id, crossref_pw, doi); URL url = new URL("http://" + crossref_host + "/" + subpath); System.out.println("Sending: " + url.toString()); HttpURLConnection urlConn = null; try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e) { this.setProxy(); try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e2) { e2.printStackTrace(); urlConn = null; } } if (urlConn != null) { try { urlConn.setDoOutput(true); urlConn.setDoInput(true); urlConn.setRequestMethod("GET"); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); InputStream in = urlConn.getInputStream(); xml = TextUtilities.convertStreamToString(in); InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser parser = spf.newSAXParser(); parser.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } urlConn.disconnect(); } catch (Exception e) { System.err.println("Warning: Consolidation set true, but the online connection to Crossref fails."); } if (cCon != null) { PreparedStatement pstmt2 = null; try { pstmt2 = cCon.prepareStatement(INSERT_CROSSREF_SQL3); pstmt2.setString(1, doi); pstmt2.setString(2, xml); pstmt2.executeUpdate(); pstmt2.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF UPDATE"); } finally { try { if (pstmt2 != null) pstmt2.close(); } catch (SQLException se) { } } } } } } else if ((title != null) & (aut != null)) { String xml = null; if (cCon != null) { PreparedStatement pstmt = null; try { pstmt = cCon.prepareStatement(QUERY_CROSSREF_SQL); pstmt.setString(1, aut); pstmt.setString(2, title); ResultSet res = pstmt.executeQuery(); if (res.next()) { xml = res.getString(1); } res.close(); pstmt.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF CACHE"); se.printStackTrace(); } finally { try { if (pstmt != null) pstmt.close(); } catch (SQLException se) { } } if (xml != null) { InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser parser = spf.newSAXParser(); parser.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } } } if (xml == null) { String subpath = String.format(TITLE_BASE_QUERY, crossref_id, crossref_pw, URLEncoder.encode(title), URLEncoder.encode(aut)); URL url = new URL("http://" + crossref_host + "/" + subpath); System.out.println("Sending: " + url.toString()); HttpURLConnection urlConn = null; try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e) { this.setProxy(); try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e2) { e2.printStackTrace(); urlConn = null; } } if (urlConn != null) { try { urlConn.setDoOutput(true); urlConn.setDoInput(true); urlConn.setRequestMethod("GET"); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); InputStream in = urlConn.getInputStream(); xml = TextUtilities.convertStreamToString(in); InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser parser = spf.newSAXParser(); parser.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } urlConn.disconnect(); } catch (Exception e) { System.err.println("Warning: Consolidation set true, but the online connection to Crossref fails."); } if (cCon != null) { PreparedStatement pstmt2 = null; try { pstmt2 = cCon.prepareStatement(INSERT_CROSSREF_SQL); pstmt2.setString(1, aut); pstmt2.setString(2, bib.getTitle()); pstmt2.setString(3, xml); pstmt2.executeUpdate(); pstmt2.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF UPDATE"); } finally { try { if (pstmt2 != null) pstmt2.close(); } catch (SQLException se) { } } } } } } else if ((firstPage != null) & (bib.getJournal() != null) & (bib.getVolume() != null)) { String subpath = String.format(JOURNAL_BASE_QUERY, crossref_id, crossref_pw, URLEncoder.encode(bib.getJournal()), URLEncoder.encode(bib.getVolume()), firstPage); URL url = new URL("http://" + crossref_host + "/" + subpath); String urlmsg = url.toString(); System.out.println(urlmsg); String xml = null; if (cCon != null) { PreparedStatement pstmt = null; try { pstmt = cCon.prepareStatement(QUERY_CROSSREF_SQL2); pstmt.setString(1, urlmsg); ResultSet res = pstmt.executeQuery(); if (res.next()) { xml = res.getString(1); } res.close(); pstmt.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF CACHE"); se.printStackTrace(); } finally { try { if (pstmt != null) pstmt.close(); } catch (SQLException se) { } } if (xml != null) { InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser parser = spf.newSAXParser(); parser.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } } } if (xml == null) { System.out.println("Sending: " + urlmsg); HttpURLConnection urlConn = null; try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e) { this.setProxy(); try { urlConn = (HttpURLConnection) url.openConnection(); } catch (Exception e2) { e2.printStackTrace(); urlConn = null; } } if (urlConn != null) { try { urlConn.setDoOutput(true); urlConn.setDoInput(true); urlConn.setRequestMethod("GET"); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); InputStream in = urlConn.getInputStream(); xml = TextUtilities.convertStreamToString(in); InputSource is = new InputSource(); is.setCharacterStream(new StringReader(xml)); DefaultHandler crossref = new crossrefUnixrefSaxParser(bib2); SAXParserFactory spf = SAXParserFactory.newInstance(); SAXParser p = spf.newSAXParser(); p.parse(is, crossref); if (bib2.size() > 0) { if (!bib2.get(0).getError()) result = true; } in.close(); urlConn.disconnect(); } catch (Exception e) { System.err.println("Warning: Consolidation set true, but the online connection to Crossref fails."); } if (cCon != null) { PreparedStatement pstmt2 = null; try { pstmt2 = cCon.prepareStatement(INSERT_CROSSREF_SQL2); pstmt2.setString(1, urlmsg); pstmt2.setString(2, xml); pstmt2.executeUpdate(); pstmt2.close(); } catch (SQLException se) { System.err.println("EXCEPTION HANDLING CROSSREF UPDATE"); } finally { try { if (pstmt2 != null) pstmt2.close(); } catch (SQLException se) { } } } } } } return result; }
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Code Sample 1:
@Override public void run() { try { if (!Util.isSufficienDataForUpload(recordedGeoPoints)) return; final InputStream gpxInputStream = new ByteArrayInputStream(RecordedRouteGPXFormatter.create(recordedGeoPoints).getBytes()); final HttpClient httpClient = new DefaultHttpClient(); final HttpPost request = new HttpPost(UPLOADSCRIPT_URL); final MultipartEntity requestEntity = new MultipartEntity(); requestEntity.addPart("gpxfile", new InputStreamBody(gpxInputStream, "" + System.currentTimeMillis() + ".gpx")); httpClient.getParams().setBooleanParameter("http.protocol.expect-continue", false); request.setEntity(requestEntity); final HttpResponse response = httpClient.execute(request); final int status = response.getStatusLine().getStatusCode(); if (status != HttpStatus.SC_OK) { logger.error("GPXUploader", "status != HttpStatus.SC_OK"); } else { final Reader r = new InputStreamReader(new BufferedInputStream(response.getEntity().getContent())); final char[] buf = new char[8 * 1024]; int read; final StringBuilder sb = new StringBuilder(); while ((read = r.read(buf)) != -1) sb.append(buf, 0, read); logger.debug("GPXUploader", "Response: " + sb.toString()); } } catch (final Exception e) { } }
Code Sample 2:
private String hashString(String key) { MessageDigest digest; try { digest = java.security.MessageDigest.getInstance("MD5"); digest.update(key.getBytes()); byte[] hash = digest.digest(); BigInteger bi = new BigInteger(1, hash); return String.format("%0" + (hash.length << 1) + "X", bi) + KERNEL_VERSION; } catch (NoSuchAlgorithmException e) { e.printStackTrace(); return "" + key.hashCode(); } }
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00
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Code Sample 1:
public static void loadPoFile(URL url) { states state = states.IDLE; String msgCtxt = ""; String msgId = ""; String msgStr = ""; try { if (url == null) return; InputStream in = url.openStream(); BufferedReader br = new BufferedReader(new InputStreamReader(in, "UTF8")); String strLine; while ((strLine = br.readLine()) != null) { if (strLine.startsWith("msgctxt")) { if (state != states.MSGCTXT) msgCtxt = ""; state = states.MSGCTXT; strLine = strLine.substring(7).trim(); } if (strLine.startsWith("msgid")) { if (state != states.MSGID) msgId = ""; state = states.MSGID; strLine = strLine.substring(5).trim(); } if (strLine.startsWith("msgstr")) { if (state != states.MSGSTR) msgStr = ""; state = states.MSGSTR; strLine = strLine.substring(6).trim(); } if (!strLine.startsWith("\"")) { state = states.IDLE; msgCtxt = ""; msgId = ""; msgStr = ""; } else { if (state == states.MSGCTXT) { msgCtxt += format(strLine); } if (state == states.MSGID) { if (msgId.isEmpty()) { if (!msgCtxt.isEmpty()) { msgId = msgCtxt + "|"; msgCtxt = ""; } } msgId += format(strLine); } if (state == states.MSGSTR) { msgCtxt = ""; msgStr += format(strLine); if (!msgId.isEmpty()) messages.setProperty(msgId, msgStr); } } } in.close(); } catch (IOException e) { Logger.logError(e, "Error loading message.po."); } }
Code Sample 2:
protected void unZip() throws PersistenceException { boolean newZip = false; try { if (null == backup) { mode = (String) context.get(Context.MODE); if (null == mode) mode = Context.MODE_NAME_RESTORE; backupDirectory = (File) context.get(Context.BACKUP_DIRECTORY); logger.debug("Got backup directory {" + backupDirectory.getAbsolutePath() + "}"); if (!backupDirectory.exists() && mode.equals(Context.MODE_NAME_BACKUP)) { newZip = true; backupDirectory.mkdirs(); } else if (!backupDirectory.exists()) { throw new PersistenceException("Backup directory {" + backupDirectory.getAbsolutePath() + "} does not exist."); } backup = new File(backupDirectory + "/" + getBackupName() + ".zip"); logger.debug("Got zip file {" + backup.getAbsolutePath() + "}"); } File _explodedDirectory = File.createTempFile("exploded-" + backup.getName() + "-", ".zip"); _explodedDirectory.mkdirs(); _explodedDirectory.delete(); backupDirectory = new File(_explodedDirectory.getParentFile(), _explodedDirectory.getName()); backupDirectory.mkdirs(); logger.debug("Created exploded directory {" + backupDirectory.getAbsolutePath() + "}"); if (!backup.exists() && mode.equals(Context.MODE_NAME_BACKUP)) { newZip = true; backup.createNewFile(); } else if (!backup.exists()) { throw new PersistenceException("Backup file {" + backup.getAbsolutePath() + "} does not exist."); } if (newZip) return; ZipFile zip = new ZipFile(backup); Enumeration zipFileEntries = zip.entries(); while (zipFileEntries.hasMoreElements()) { ZipEntry entry = (ZipEntry) zipFileEntries.nextElement(); String currentEntry = entry.getName(); logger.debug("Inflating: " + entry); File destFile = new File(backupDirectory, currentEntry); File destinationParent = destFile.getParentFile(); destinationParent.mkdirs(); if (!entry.isDirectory()) { InputStream in = null; OutputStream out = null; try { in = zip.getInputStream(entry); out = new FileOutputStream(destFile); IOUtils.copy(in, out); } finally { if (null != out) out.close(); if (null != in) in.close(); } } } } catch (IOException e) { logger.error("Unable to unzip {" + backup + "}", e); throw new PersistenceException(e); } }
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Code Sample 1:
@Override public void write(OutputStream output) throws IOException, WebApplicationException { final ByteArrayOutputStream baos = new ByteArrayOutputStream(); final GZIPOutputStream gzipOs = new GZIPOutputStream(baos); IOUtils.copy(is, gzipOs); baos.close(); gzipOs.close(); output.write(baos.toByteArray()); }
Code Sample 2:
private void CopyTo(File dest) throws IOException { FileReader in = null; FileWriter out = null; int c; try { in = new FileReader(image); out = new FileWriter(dest); while ((c = in.read()) != -1) out.write(c); } finally { if (in != null) try { in.close(); } catch (Exception e) { } if (out != null) try { out.close(); } catch (Exception e) { } } }
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Code Sample 1:
public AbstractASiCSignatureService(InputStream documentInputStream, DigestAlgo digestAlgo, RevocationDataService revocationDataService, TimeStampService timeStampService, String claimedRole, IdentityDTO identity, byte[] photo, TemporaryDataStorage temporaryDataStorage, OutputStream documentOutputStream) throws IOException { super(digestAlgo); this.temporaryDataStorage = temporaryDataStorage; this.documentOutputStream = documentOutputStream; this.tmpFile = File.createTempFile("eid-dss-", ".asice"); FileOutputStream fileOutputStream; fileOutputStream = new FileOutputStream(this.tmpFile); IOUtils.copy(documentInputStream, fileOutputStream); addSignatureFacet(new ASiCSignatureFacet(this.tmpFile, digestAlgo)); XAdESSignatureFacet xadesSignatureFacet = new XAdESSignatureFacet(getSignatureDigestAlgorithm()); xadesSignatureFacet.setRole(claimedRole); xadesSignatureFacet.setXadesNamespacePrefix("xades"); addSignatureFacet(xadesSignatureFacet); addSignatureFacet(new XAdESXLSignatureFacet(timeStampService, revocationDataService, getSignatureDigestAlgorithm())); addSignatureFacet(new KeyInfoSignatureFacet(true, false, false)); if (null != identity) { IdentitySignatureFacet identitySignatureFacet = new IdentitySignatureFacet(identity, photo, getSignatureDigestAlgorithm()); addSignatureFacet(identitySignatureFacet); } }
Code Sample 2:
public static void copyFile(File src, File dest, boolean preserveFileDate) throws IOException { if (src.exists() && src.isDirectory()) { throw new IOException("source file exists but is a directory"); } if (dest.exists() && dest.isDirectory()) { dest = new File(dest, src.getName()); } if (!dest.exists()) { dest.createNewFile(); } FileChannel srcCH = null; FileChannel destCH = null; try { srcCH = new FileInputStream(src).getChannel(); destCH = new FileOutputStream(dest).getChannel(); destCH.transferFrom(srcCH, 0, srcCH.size()); } finally { closeQuietly(srcCH); closeQuietly(destCH); } if (src.length() != dest.length()) { throw new IOException("Failed to copy full contents from '" + src + "' to '" + dest + "'"); } if (preserveFileDate) { dest.setLastModified(src.lastModified()); } }
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Code Sample 1:
public boolean saveNote(NoteData n) { String query; try { conn.setAutoCommit(false); Statement stmt = null; ResultSet rset = null; stmt = conn.createStatement(); query = "select * from notes where noteid = " + n.getID(); rset = stmt.executeQuery(query); if (rset.next()) { query = "UPDATE notes SET title = '" + escapeCharacters(n.getTitle()) + "', keywords = '" + escapeCharacters(n.getKeywords()) + "' WHERE noteid = " + n.getID(); try { stmt.executeUpdate(query); } catch (SQLException e) { e.printStackTrace(); conn.rollback(); conn.setAutoCommit(true); return false; } LinkedList<FieldData> fields = n.getFields(); ListIterator<FieldData> iter = fields.listIterator(0); FieldData f = null; PreparedStatement pstmt = conn.prepareStatement("UPDATE fielddata SET data = ? WHERE noteid = ? AND fieldid = ?"); try { while (iter.hasNext()) { f = iter.next(); if (f instanceof FieldDataImage) { System.out.println("field is an image."); pstmt.setBytes(1, ((FieldDataImage) f).getDataBytes()); } else { System.out.println("field is not an image"); pstmt.setString(1, f.getData()); } pstmt.setInt(2, n.getID()); pstmt.setInt(3, f.getID()); pstmt.execute(); } } catch (SQLException e) { conn.rollback(); conn.setAutoCommit(true); e.printStackTrace(); return false; } query = "DELETE FROM links WHERE (note1id = " + n.getID() + " OR note2id = " + n.getID() + ")"; try { stmt.execute(query); } catch (SQLException e) { conn.rollback(); conn.setAutoCommit(true); e.printStackTrace(); return false; } Vector<Link> associations = n.getAssociations(); ListIterator<Link> itr = associations.listIterator(); Link association = null; pstmt = conn.prepareStatement("INSERT INTO links (note1id, note2id) VALUES (?, ?)"); try { while (itr.hasNext()) { association = itr.next(); pstmt.setInt(1, n.getID()); pstmt.setInt(2, association.getID()); pstmt.execute(); } } catch (SQLException e) { conn.rollback(); conn.setAutoCommit(true); e.printStackTrace(); return false; } } else { query = "INSERT INTO notes (templateid, title, keywords) VALUES (" + n.getTemplate().getID() + ", '" + escapeCharacters(n.getTitle()) + "', '" + escapeCharacters(n.getKeywords()) + "')"; try { stmt.executeUpdate(query); } catch (SQLException e) { e.printStackTrace(); conn.rollback(); conn.setAutoCommit(true); return false; } LinkedList<FieldData> fields = n.getFields(); ListIterator<FieldData> iter = fields.listIterator(0); FieldData f = null; n.setID(Integer.parseInt(executeMySQLGet("SELECT LAST_INSERT_ID()"))); PreparedStatement pstmt; try { pstmt = conn.prepareStatement("INSERT INTO fielddata (noteid, fieldid, data) VALUES (?,?,?)"); while (iter.hasNext()) { f = iter.next(); if (f instanceof FieldDataImage) { System.out.println("field is an image."); pstmt.setBytes(3, ((FieldDataImage) f).getDataBytes()); } else { System.out.println("field is not an image"); pstmt.setString(3, f.getData()); } pstmt.setInt(1, n.getID()); pstmt.setInt(2, f.getID()); pstmt.execute(); } } catch (SQLException e) { conn.rollback(); conn.setAutoCommit(true); e.printStackTrace(); return false; } Vector<Link> assoc = n.getAssociations(); Iterator<Link> itr = assoc.listIterator(); Link l = null; pstmt = conn.prepareStatement("INSERT INTO links (note1id, note2id) VALUES (?,?)"); try { while (itr.hasNext()) { l = itr.next(); pstmt.setInt(1, n.getID()); pstmt.setInt(2, l.getID()); pstmt.execute(); } } catch (SQLException e) { conn.rollback(); conn.setAutoCommit(true); e.printStackTrace(); return false; } } conn.commit(); conn.setAutoCommit(true); } catch (SQLException ex) { ex.printStackTrace(); return false; } return true; }
Code Sample 2:
public boolean ponerFlotantexRonda(int idJugadorDiv, int idRonda, int dato) { int intResult = 0; String sql = "UPDATE jugadorxdivxronda " + " SET flotante = " + dato + " WHERE jugadorxDivision_idJugadorxDivision = " + idJugadorDiv + " AND ronda_numeroRonda = " + idRonda; try { connection = conexionBD.getConnection(); connection.setAutoCommit(false); ps = connection.prepareStatement(sql); intResult = ps.executeUpdate(); connection.commit(); } catch (SQLException ex) { ex.printStackTrace(); try { connection.rollback(); } catch (SQLException exe) { exe.printStackTrace(); } } finally { conexionBD.close(ps); conexionBD.close(connection); } return (intResult > 0); }
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Code Sample 1:
public static boolean unzip_and_merge(String infile, String outfile) { try { BufferedOutputStream dest = null; FileInputStream fis = new FileInputStream(infile); ZipInputStream zis = new ZipInputStream(new BufferedInputStream(fis)); FileOutputStream fos = new FileOutputStream(outfile); dest = new BufferedOutputStream(fos, BUFFER); while (zis.getNextEntry() != null) { int count; byte data[] = new byte[BUFFER]; while ((count = zis.read(data, 0, BUFFER)) != -1) dest.write(data, 0, count); dest.flush(); } dest.close(); zis.close(); } catch (Exception e) { e.printStackTrace(); return false; } return true; }
Code Sample 2:
public static void concatFiles(final String as_base_file_name) throws IOException, FileNotFoundException { new File(as_base_file_name).createNewFile(); final OutputStream lo_out = new FileOutputStream(as_base_file_name, true); int ln_part = 1, ln_readed = -1; final byte[] lh_buffer = new byte[32768]; File lo_file = new File(as_base_file_name + "part1"); while (lo_file.exists() && lo_file.isFile()) { final InputStream lo_input = new FileInputStream(lo_file); while ((ln_readed = lo_input.read(lh_buffer)) != -1) { lo_out.write(lh_buffer, 0, ln_readed); } ln_part++; lo_file = new File(as_base_file_name + "part" + ln_part); } lo_out.flush(); lo_out.close(); }
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Code Sample 1:
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(); } }
Code Sample 2:
private static void execute(String fileName) throws IOException, SQLException { InputStream input = DatabaseConstants.class.getResourceAsStream(fileName); StringWriter writer = new StringWriter(); IOUtils.copy(input, writer); String sql = writer.toString(); Statement statement = connection.createStatement(); statement.execute(sql); }
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Code Sample 1:
public static void main(String[] args) { Option optHelp = new Option("h", "help", false, "print this message"); Option optCerts = new Option("c", "cert", true, "use external semicolon separated X.509 certificate files"); optCerts.setArgName("certificates"); Option optPasswd = new Option("p", "password", true, "set password for opening PDF"); optPasswd.setArgName("password"); Option optExtract = new Option("e", "extract", true, "extract signed PDF revisions to given folder"); optExtract.setArgName("folder"); Option optListKs = new Option("lk", "list-keystore-types", false, "list keystore types provided by java"); Option optListCert = new Option("lc", "list-certificates", false, "list certificate aliases in a KeyStore"); Option optKsType = new Option("kt", "keystore-type", true, "use keystore type with given name"); optKsType.setArgName("keystore_type"); Option optKsFile = new Option("kf", "keystore-file", true, "use given keystore file"); optKsFile.setArgName("file"); Option optKsPass = new Option("kp", "keystore-password", true, "password for keystore file (look on -kf option)"); optKsPass.setArgName("password"); Option optFailFast = new Option("ff", "fail-fast", true, "flag which sets the Verifier to exit with error code on the first validation failure"); final Options options = new Options(); options.addOption(optHelp); options.addOption(optCerts); options.addOption(optPasswd); options.addOption(optExtract); options.addOption(optListKs); options.addOption(optListCert); options.addOption(optKsType); options.addOption(optKsFile); options.addOption(optKsPass); options.addOption(optFailFast); CommandLine line = null; try { CommandLineParser parser = new PosixParser(); line = parser.parse(options, args); } catch (ParseException exp) { System.err.println("Illegal command used: " + exp.getMessage()); System.exit(-1); } final boolean failFast = line.hasOption("ff"); final String[] tmpArgs = line.getArgs(); if (line.hasOption("h") || args == null || args.length == 0) { HelpFormatter formatter = new HelpFormatter(); formatter.printHelp(70, "java -jar Verifier.jar [file1.pdf [file2.pdf ...]]", "JSignPdf Verifier is a command line tool for verifying signed PDF documents.", options, null, true); } else if (line.hasOption("lk")) { for (String tmpKsType : KeyStoreUtils.getKeyStores()) { System.out.println(tmpKsType); } } else if (line.hasOption("lc")) { for (String tmpCert : KeyStoreUtils.getCertAliases(line.getOptionValue("kt"), line.getOptionValue("kf"), line.getOptionValue("kp"))) { System.out.println(tmpCert); } } else { final VerifierLogic tmpLogic = new VerifierLogic(line.getOptionValue("kt"), line.getOptionValue("kf"), line.getOptionValue("kp")); tmpLogic.setFailFast(failFast); if (line.hasOption("c")) { String tmpCertFiles = line.getOptionValue("c"); for (String tmpCFile : tmpCertFiles.split(";")) { tmpLogic.addX509CertFile(tmpCFile); } } byte[] tmpPasswd = null; if (line.hasOption("p")) { tmpPasswd = line.getOptionValue("p").getBytes(); } String tmpExtractDir = null; if (line.hasOption("e")) { tmpExtractDir = new File(line.getOptionValue("e")).getPath(); } for (String tmpFilePath : tmpArgs) { System.out.println("Verifying " + tmpFilePath); final File tmpFile = new File(tmpFilePath); if (!tmpFile.canRead()) { System.err.println("Couln't read the file. Check the path and permissions."); if (failFast) { System.exit(-1); } continue; } final VerificationResult tmpResult = tmpLogic.verify(tmpFilePath, tmpPasswd); if (tmpResult.getException() != null) { tmpResult.getException().printStackTrace(); System.exit(-1); } else { System.out.println("Total revisions: " + tmpResult.getTotalRevisions()); for (SignatureVerification tmpSigVer : tmpResult.getVerifications()) { System.out.println(tmpSigVer.toString()); if (tmpExtractDir != null) { try { File tmpExFile = new File(tmpExtractDir + "/" + tmpFile.getName() + "_" + tmpSigVer.getRevision() + ".pdf"); System.out.println("Extracting to " + tmpExFile.getCanonicalPath()); FileOutputStream tmpFOS = new FileOutputStream(tmpExFile.getCanonicalPath()); InputStream tmpIS = tmpLogic.extractRevision(tmpFilePath, tmpPasswd, tmpSigVer.getName()); IOUtils.copy(tmpIS, tmpFOS); tmpIS.close(); tmpFOS.close(); } catch (IOException ioe) { ioe.printStackTrace(); } } } if (failFast && SignatureVerification.isError(tmpResult.getVerificationResultCode())) { System.exit(tmpResult.getVerificationResultCode()); } } } } }
Code Sample 2:
public static void copy(File source, File dest) throws IOException { FileChannel in = null, out = null; try { in = new FileInputStream(source).getChannel(); out = new FileOutputStream(dest).getChannel(); long size = in.size(); MappedByteBuffer buf = in.map(FileChannel.MapMode.READ_ONLY, 0, size); out.write(buf); } finally { if (in != null) in.close(); if (out != null) out.close(); } }
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Code Sample 1:
private String getPayLoadWithCookie(String url) { StringBuffer sb = new StringBuffer(); if (this.cookie != null) { try { Log.debug("Requesting url ==> " + url); URLConnection con = new URL(url).openConnection(); con.setDoOutput(true); con.addRequestProperty("Cookie", this.cookie); BufferedReader br = new BufferedReader(new InputStreamReader(con.getInputStream())); String line = ""; while ((line = br.readLine()) != null) { sb.append(line + "\n"); } } catch (MalformedURLException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } } return sb.toString(); }
Code Sample 2:
public synchronized void deleteDocument(final String file) throws IOException { SQLException ex = null; try { PreparedStatement findFileStmt = con.prepareStatement("SELECT ID AS \"ID\" FROM File_ WHERE Name = ?"); findFileStmt.setString(1, file); ResultSet rs = findFileStmt.executeQuery(); if (null != rs && rs.next()) { int fileId = rs.getInt("ID"); rs.close(); rs = null; PreparedStatement deleteTokensStmt = con.prepareStatement("DELETE FROM Token_ WHERE FieldID IN ( SELECT ID FROM Field_ WHERE FileID = ? )"); deleteTokensStmt.setInt(1, fileId); deleteTokensStmt.executeUpdate(); PreparedStatement deleteFieldsStmt = con.prepareStatement("DELETE FROM Field_ WHERE FileID = ?"); deleteFieldsStmt.setInt(1, fileId); deleteFieldsStmt.executeUpdate(); PreparedStatement deleteFileStmt = con.prepareStatement("DELETE FROM File_ WHERE ID = ?"); deleteFileStmt.setInt(1, fileId); deleteFileStmt.executeUpdate(); deleteFileStmt.close(); deleteFileStmt = null; deleteFieldsStmt.close(); deleteFieldsStmt = null; deleteTokensStmt.close(); deleteTokensStmt = null; } findFileStmt.close(); findFileStmt = null; } catch (SQLException e) { e.printStackTrace(); ex = e; try { this.con.rollback(); } catch (SQLException e2) { } } finally { try { this.con.setAutoCommit(true); } catch (SQLException e2) { } } if (null != ex) throw new IOException(ex.getMessage()); }
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Code Sample 1:
public void download(String ftpServer, String user, String password, String fileName, File destination) throws MalformedURLException, IOException { if (ftpServer != null && fileName != null && destination != null) { StringBuffer sb = new StringBuffer("ftp://"); if (user != null && password != null) { sb.append(user); sb.append(':'); sb.append(password); sb.append('@'); } sb.append(ftpServer); sb.append('/'); sb.append(fileName); sb.append(";type=i"); BufferedInputStream bis = null; BufferedOutputStream bos = null; try { URL url = new URL(sb.toString()); URLConnection urlc = url.openConnection(); bis = new BufferedInputStream(urlc.getInputStream()); bos = new BufferedOutputStream(new FileOutputStream(destination)); int i; while ((i = bis.read()) != -1) { bos.write(i); } } finally { if (bis != null) try { bis.close(); } catch (IOException ioe) { ioe.printStackTrace(); } if (bos != null) try { bos.close(); } catch (IOException ioe) { ioe.printStackTrace(); } } } else { System.out.println("Input not available"); } }
Code Sample 2:
public void process(String number) { try { HttpClient httpclient = new DefaultHttpClient(); HttpPost httpPost = new HttpPost(Constants.TRAIN_INFO_URL.value()); List<NameValuePair> nameValuePairs = new ArrayList<NameValuePair>(); nameValuePairs.add(new BasicNameValuePair(Constants.TRAIN_NUMBER_POST_PARAM_NAME.value(), number)); httpPost.setEntity(new UrlEncodedFormEntity(nameValuePairs)); HttpResponse response = httpclient.execute(httpPost); InputStream is = response.getEntity().getContent(); Document doc = getDocument(is); XPathFactory factory = XPathFactory.newInstance(); XPath xpath = factory.newXPath(); XPathExpression expr = xpath.compile(Constants.XPATH_TRAIN_STOPS_INFO.value()); Object result = expr.evaluate(doc, XPathConstants.NODESET); NodeList nodes = (NodeList) result; List<String> list = new ArrayList<String>(); for (int i = 0; i < nodes.getLength(); i++) { list.add(nodes.item(i).getNodeValue()); } parse(list); } catch (ClientProtocolException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } catch (XPathExpressionException e) { e.printStackTrace(); } }
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Code Sample 1:
public static int copyFile(File src, File dest) throws IOException { FileChannel in = null, out = null; try { in = new FileInputStream(src).getChannel(); out = new FileOutputStream(dest).getChannel(); in.transferTo(0, in.size(), out); } finally { if (in != null) in.close(); if (out != null) out.close(); } return 1; }
Code Sample 2:
public void copyFile(File source, File destination, boolean lazy) { if (!source.exists()) { return; } if (lazy) { String oldContent = null; try { oldContent = read(source); } catch (Exception e) { return; } String newContent = null; try { newContent = read(destination); } catch (Exception e) { } if ((oldContent == null) || !oldContent.equals(newContent)) { copyFile(source, destination, false); } } else { if ((destination.getParentFile() != null) && (!destination.getParentFile().exists())) { destination.getParentFile().mkdirs(); } try { FileChannel srcChannel = new FileInputStream(source).getChannel(); FileChannel dstChannel = new FileOutputStream(destination).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } catch (IOException ioe) { _log.error(ioe.getMessage()); } } }
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Code Sample 1:
private void handleFile(File file, HttpServletRequest request, HttpServletResponse response) throws Exception { String filename = file.getName(); long filesize = file.length(); String mimeType = getMimeType(filename); response.setContentType(mimeType); if (filesize > getDownloadThreshhold()) { response.setHeader("Content-Disposition", "attachment; filename=" + filename); } response.setContentLength((int) filesize); ServletOutputStream out = response.getOutputStream(); IOUtils.copy(new FileInputStream(file), out); out.flush(); }
Code Sample 2:
private boolean copyAvecProgressNIO(File sRC2, File dEST2, JProgressBar progressEnCours) throws IOException { boolean resultat = false; FileInputStream fis = new FileInputStream(sRC2); FileOutputStream fos = new FileOutputStream(dEST2); java.nio.channels.FileChannel channelSrc = fis.getChannel(); java.nio.channels.FileChannel channelDest = fos.getChannel(); progressEnCours.setValue(0); progressEnCours.setString(sRC2 + " : 0 %"); channelSrc.transferTo(0, channelSrc.size(), channelDest); progressEnCours.setValue(100); progressEnCours.setString(sRC2 + " : 100 %"); if (channelSrc.size() == channelDest.size()) { resultat = true; } else { resultat = false; } fis.close(); fos.close(); return (resultat); }
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Code Sample 1:
public static void exportGestureSet(List<GestureSet> sets, File file) { try { FileOutputStream outputStream = new FileOutputStream(file); IOUtils.copy(exportGestureSetsAsStream(sets), outputStream); outputStream.close(); } catch (FileNotFoundException e) { LOGGER.log(Level.SEVERE, "Could not export Gesture Sets. Export File not found.", e); } catch (IOException e) { LOGGER.log(Level.SEVERE, "Could not export Gesture Sets.", e); } }
Code Sample 2:
public boolean copy(String file, String target, int tag) { try { File file_in = new File(file); File file_out = new File(target); File parent = file_out.getParentFile(); parent.mkdirs(); FileInputStream in1 = new FileInputStream(file_in); FileOutputStream out1 = new FileOutputStream(file_out); byte[] bytes = new byte[1024]; int c; while ((c = in1.read(bytes)) != -1) out1.write(bytes, 0, c); in1.close(); out1.close(); return true; } catch (Exception e) { e.printStackTrace(); System.out.println("Error!"); return false; } }
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Code Sample 1:
public static void doVersionCheck(View view) { view.showWaitCursor(); try { URL url = new URL(jEdit.getProperty("version-check.url")); InputStream in = url.openStream(); BufferedReader bin = new BufferedReader(new InputStreamReader(in)); String line; String develBuild = null; String stableBuild = null; while ((line = bin.readLine()) != null) { if (line.startsWith(".build")) develBuild = line.substring(6).trim(); else if (line.startsWith(".stablebuild")) stableBuild = line.substring(12).trim(); } bin.close(); if (develBuild != null && stableBuild != null) { doVersionCheck(view, stableBuild, develBuild); } } catch (IOException e) { String[] args = { jEdit.getProperty("version-check.url"), e.toString() }; GUIUtilities.error(view, "read-error", args); } view.hideWaitCursor(); }
Code Sample 2:
public void readData(int choice) throws IOException { for (i = 0; i < max; i++) for (j = 0; j < max; j++) { phase_x[i][j] = 0.0; phase_y[i][j] = 0.0; } URL url; InputStream is; InputStreamReader isr; if (choice == 0) { url = getClass().getResource("resources/Phase_623_620_Achromat.dat"); is = url.openStream(); isr = new InputStreamReader(is); } else { url = getClass().getResource("resources/Phase_623_620_NoAchromat.dat"); is = url.openStream(); isr = new InputStreamReader(is); } BufferedReader br = new BufferedReader(isr); s = br.readLine(); StringTokenizer st = new StringTokenizer(s); i = 0; j = 0; phase_x[i][j] = 4 * Double.parseDouble(st.nextToken()); phase_y[i][j] = 4 * Double.parseDouble(st.nextToken()); xgridmin = phase_x[i][j]; ygridmin = phase_y[i][j]; temp_prev = phase_x[i][j]; kd[i][j] = Double.parseDouble(st.nextToken()); kfs[i][j] = Double.parseDouble(st.nextToken()); kfl[i][j] = Double.parseDouble(st.nextToken()); kdee[i][j] = Double.parseDouble(st.nextToken()); kdc[i][j] = Double.parseDouble(st.nextToken()); kfc[i][j] = Double.parseDouble(st.nextToken()); j++; int k = 0; while ((s = br.readLine()) != null) { st = new StringTokenizer(s); temp_new = 4 * Double.parseDouble(st.nextToken()); if (temp_new != temp_prev) { temp_prev = temp_new; i++; j = 0; } phase_x[i][j] = temp_new; phase_y[i][j] = 4 * Double.parseDouble(st.nextToken()); kd[i][j] = Double.parseDouble(st.nextToken()); kfs[i][j] = Double.parseDouble(st.nextToken()); kfl[i][j] = Double.parseDouble(st.nextToken()); kdee[i][j] = Double.parseDouble(st.nextToken()); kdc[i][j] = Double.parseDouble(st.nextToken()); kfc[i][j] = Double.parseDouble(st.nextToken()); imax = i; jmax = j; j++; k++; } xgridmax = phase_x[i][j - 1]; ygridmax = phase_y[i][j - 1]; }
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Code Sample 1:
public void testSetRequestProperty() throws Exception { MockHTTPServer httpServer = new MockHTTPServer("HTTP Server for User-Specified Request Property", 2); httpServer.start(); synchronized (bound) { if (!httpServer.started) { bound.wait(5000); } } HttpURLConnection urlConnection = (HttpURLConnection) new URL("http://localhost:" + httpServer.port()).openConnection(); assertEquals(0, urlConnection.getRequestProperties().size()); final String PROPERTY1 = "Accept"; final String PROPERTY2 = "Connection"; urlConnection.setRequestProperty(PROPERTY1, null); urlConnection.setRequestProperty(PROPERTY1, null); urlConnection.setRequestProperty(PROPERTY2, "keep-alive"); assertEquals(2, urlConnection.getRequestProperties().size()); assertNull(urlConnection.getRequestProperty(PROPERTY1)); assertEquals("keep-alive", urlConnection.getRequestProperty(PROPERTY2)); urlConnection.setRequestProperty(PROPERTY1, "/"); urlConnection.setRequestProperty(PROPERTY2, null); assertEquals("/", urlConnection.getRequestProperty(PROPERTY1)); assertNull(urlConnection.getRequestProperty(PROPERTY2)); }
Code Sample 2:
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!"); }
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Code Sample 1:
public static String getWebPage(URL urlObj) { try { String content = ""; InputStreamReader is = new InputStreamReader(urlObj.openStream()); BufferedReader reader = new BufferedReader(is); String line; while ((line = reader.readLine()) != null) { content += line; } return content; } catch (IOException e) { throw new Error("The page " + quote(urlObj.toString()) + "could not be retrieved." + "\nThis is could be caused by a number of things:" + "\n" + "\n - the computer hosting the web page you want is down, or has returned an error" + "\n - your computer does not have Internet access" + "\n - the heat death of the universe has occurred, taking down all web servers with it"); } }
Code Sample 2:
@SuppressWarnings("unchecked") public static void main(String[] args) throws Exception { PositionParser pp; Database.init("XIDResult"); pp = new PositionParser("01:33:50.904+30:39:35.79"); String url = "http://simbad.u-strasbg.fr/simbad/sim-script?submit=submit+script&script="; String script = "format object \"%IDLIST[%-30*]|-%COO(A)|%COO(D)|%OTYPELIST(S)\"\n"; String tmp = ""; script += pp.getPosition() + " radius=1m"; url += URLEncoder.encode(script, "ISO-8859-1"); URL simurl = new URL(url); BufferedReader in = new BufferedReader(new InputStreamReader(simurl.openStream())); String boeuf; boolean data_found = false; JSONObject retour = new JSONObject(); JSONArray dataarray = new JSONArray(); JSONArray colarray = new JSONArray(); JSONObject jsloc = new JSONObject(); jsloc.put("sTitle", "ID"); colarray.add(jsloc); jsloc = new JSONObject(); jsloc.put("sTitle", "Position"); colarray.add(jsloc); jsloc = new JSONObject(); jsloc.put("sTitle", "Type"); colarray.add(jsloc); retour.put("aoColumns", colarray); int datasize = 0; while ((boeuf = in.readLine()) != null) { if (data_found) { String[] fields = boeuf.trim().split("\\|", -1); int pos = fields.length - 1; if (pos >= 3) { String type = fields[pos]; pos--; String dec = fields[pos]; pos--; String ra = fields[pos]; String id = ""; for (int i = 0; i < pos; i++) { id += fields[i]; if (i < (pos - 1)) { id += "|"; } } if (id.length() <= 30) { JSONArray darray = new JSONArray(); darray.add(id.trim()); darray.add(ra + " " + dec); darray.add(type.trim()); dataarray.add(darray); datasize++; } } } else if (boeuf.startsWith("::data")) { data_found = true; } } retour.put("aaData", dataarray); retour.put("iTotalRecords", datasize); retour.put("iTotalDisplayRecords", datasize); System.out.println(retour.toJSONString()); in.close(); }
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Code Sample 1:
public void testConvert() throws IOException, ConverterException { InputStreamReader reader = new InputStreamReader(new FileInputStream("test" + File.separator + "input" + File.separator + "A0851ohneex.dat"), CharsetUtil.forName("x-PICA")); FileWriter writer = new FileWriter("test" + File.separator + "output" + File.separator + "ddbInterToMarcxmlTest.out"); Converter c = context.getConverter("ddb-intern", "MARC21-xml", "x-PICA", "UTF-8"); ConversionParameters params = new ConversionParameters(); params.setSourceCharset("x-PICA"); params.setTargetCharset("UTF-8"); params.setAddCollectionHeader(true); params.setAddCollectionFooter(true); c.convert(reader, writer, params); }
Code Sample 2:
public static void copyFile(File in, File out) throws FileNotFoundException, IOException { FileChannel sourceChannel = null; FileChannel destinationChannel = null; try { sourceChannel = new FileInputStream(in).getChannel(); destinationChannel = new FileOutputStream(out).getChannel(); sourceChannel.transferTo(0, sourceChannel.size(), destinationChannel); } finally { try { sourceChannel.close(); } catch (Exception ex) { } try { destinationChannel.close(); } catch (Exception ex) { } } }
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Code Sample 1:
private void copy(File sourceFile, File destinationFile) { try { FileChannel in = new FileInputStream(sourceFile).getChannel(); FileChannel out = new FileOutputStream(destinationFile).getChannel(); try { in.transferTo(0, in.size(), out); in.close(); out.close(); } catch (IOException e) { GTLogger.getInstance().error(e); } } catch (FileNotFoundException e) { GTLogger.getInstance().error(e); } }
Code Sample 2:
public static File createTempFile(InputStream contentStream, String ext) throws IOException { ExceptionUtils.throwIfNull(contentStream, "contentStream"); File file = File.createTempFile("test", ext); FileOutputStream fos = new FileOutputStream(file); try { IOUtils.copy(contentStream, fos, false); } finally { fos.close(); } return file; }
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Code Sample 1:
public static void copyFile(File in, File out) throws EnhancedException { try { FileChannel sourceChannel = new FileInputStream(in).getChannel(); FileChannel destinationChannel = new FileOutputStream(out).getChannel(); sourceChannel.transferTo(0, sourceChannel.size(), destinationChannel); sourceChannel.close(); destinationChannel.close(); } catch (Exception e) { throw new EnhancedException("Could not copy file " + in.getAbsolutePath() + " to " + out.getAbsolutePath() + ".", e); } }
Code Sample 2:
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(); } }
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Code Sample 1:
protected static String encodePassword(String raw_password) throws DatabaseException { String clean_password = validatePassword(raw_password); try { MessageDigest md = MessageDigest.getInstance(DEFAULT_PASSWORD_DIGEST); md.update(clean_password.getBytes(DEFAULT_PASSWORD_ENCODING)); String digest = new String(Base64.encodeBase64(md.digest())); if (log.isDebugEnabled()) log.debug("encodePassword: digest=" + digest); return digest; } catch (UnsupportedEncodingException e) { throw new DatabaseException("encoding-problem with password", e); } catch (NoSuchAlgorithmException e) { throw new DatabaseException("digest-problem encoding password", e); } }
Code Sample 2:
public static String cryptoSHA(String _strSrc) { try { BASE64Encoder encoder = new BASE64Encoder(); MessageDigest sha = MessageDigest.getInstance("SHA"); sha.update(_strSrc.getBytes()); byte[] buffer = sha.digest(); return encoder.encode(buffer); } catch (Exception err) { System.out.println(err); } return ""; }
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Code Sample 1:
public void doActionOn(TomcatProject prj) throws Exception { String path = TomcatLauncherPlugin.getDefault().getManagerAppUrl(); try { path += "/reload?path=" + prj.getWebPath(); URL url = new URL(path); Authenticator.setDefault(new Authenticator() { protected PasswordAuthentication getPasswordAuthentication() { String user = TomcatLauncherPlugin.getDefault().getManagerAppUser(); String password = TomcatLauncherPlugin.getDefault().getManagerAppPassword(); return new PasswordAuthentication(user, password.toCharArray()); } }); HttpURLConnection connection = (HttpURLConnection) url.openConnection(); connection.getContent(); connection.disconnect(); Authenticator.setDefault(null); } catch (Exception e) { throw new Exception("The following url was used : \n" + path + "\n\nCheck manager app settings (username and password)\n\n"); } }
Code Sample 2:
public static void storeRemote(String sourceLocation, SourceDetail targetSourceDetail, String targetlocation, boolean isBinary) throws Exception { FTPClient client = new FTPClient(); client.connect(targetSourceDetail.getHost()); client.login(targetSourceDetail.getUser(), targetSourceDetail.getPassword()); if (isBinary) client.setFileType(FTPClient.BINARY_FILE_TYPE); File file = new File(sourceLocation); if (file.isDirectory()) { client.makeDirectory(targetlocation); FileInputStream in = null; for (File myFile : file.listFiles()) { if (myFile.isDirectory()) { storeRemote(myFile.getAbsolutePath(), targetSourceDetail, targetlocation + "/" + myFile.getName(), isBinary); } else { in = new FileInputStream(myFile.getAbsolutePath()); if (!targetlocation.endsWith("/")) client.storeFile(targetlocation + "/" + myFile.getName(), in); else client.storeFile(targetlocation + myFile.getName(), in); in.close(); } } } else { FileInputStream in = new FileInputStream(sourceLocation); client.storeFile(targetlocation, in); in.close(); } client.disconnect(); }
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Code Sample 1:
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(); } }
Code Sample 2:
public int getHttpStatus(ProxyInfo proxyInfo, String sUrl, String cookie, String host) { HttpURLConnection connection = null; try { if (proxyInfo == null) { URL url = new URL(sUrl); connection = (HttpURLConnection) url.openConnection(); } else { InetSocketAddress addr = new InetSocketAddress(proxyInfo.getPxIp(), proxyInfo.getPxPort()); Proxy proxy = new Proxy(Proxy.Type.HTTP, addr); URL url = new URL(sUrl); connection = (HttpURLConnection) url.openConnection(proxy); } if (!isStringNull(host)) setHttpInfo(connection, cookie, host, ""); connection.setConnectTimeout(90 * 1000); connection.setReadTimeout(90 * 1000); connection.connect(); connection.getInputStream(); return connection.getResponseCode(); } catch (IOException e) { log.info(proxyInfo + " getHTTPConent Error "); return 0; } catch (Exception e) { log.info(proxyInfo + " getHTTPConent Error "); return 0; } }
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Code Sample 1:
public void load() throws IOException { File file = new File(filename); URL url = file.toURI().toURL(); Properties temp = new Properties(); temp.load(url.openStream()); if (temp.getProperty("Width") != null) try { width = Integer.valueOf(temp.getProperty("Width")); } catch (Exception e) { System.out.println("Error loading Calibration Sheet Width - leaving as default: " + e); } if (temp.getProperty("Height") != null) try { height = Integer.valueOf(temp.getProperty("Height")); } catch (Exception e) { System.out.println("Error loading Calibration Sheet Height - leaving as default: " + e); } if (temp.getProperty("CircleRadius") != null) try { circleradius = Double.valueOf(temp.getProperty("CircleRadius")); } catch (Exception e) { System.out.println("Error loading Calibration Sheet Circle Radius - leaving as default: " + e); } ArrayList<Ellipse> calibrationcircleslist = new ArrayList<Ellipse>(); int i = 0; while ((temp.getProperty("Circle" + i + "CenterX") != null) && (temp.getProperty("Circle" + i + "CenterY") != null)) { Point2d circlecenter = new Point2d(0, 0); circlecenter.x = Double.valueOf(temp.getProperty("Circle" + i + "CenterX")); circlecenter.y = Double.valueOf(temp.getProperty("Circle" + i + "CenterY")); Ellipse element = new Ellipse(circlecenter, circleradius, circleradius, 0); calibrationcircleslist.add(element); i++; } calibrationcircles = new Ellipse[0]; calibrationcircles = calibrationcircleslist.toArray(calibrationcircles); }
Code Sample 2:
public static void saveURL(URL url, Writer writer) throws IOException { BufferedInputStream in = new BufferedInputStream(url.openStream()); for (int c = in.read(); c != -1; c = in.read()) { writer.write(c); } }
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Code Sample 1:
public void createZip(File zipFileName, Vector<File> selected) { try { byte[] buffer = new byte[4096]; ZipOutputStream out = new ZipOutputStream(new BufferedOutputStream(new FileOutputStream(zipFileName), 8096)); out.setLevel(Deflater.BEST_COMPRESSION); out.setMethod(ZipOutputStream.DEFLATED); for (int i = 0; i < selected.size(); i++) { FileInputStream in = new FileInputStream(selected.get(i)); String file = selected.get(i).getPath(); if (file.indexOf("\\") != -1) file = file.substring(file.lastIndexOf(Options.fs) + 1, file.length()); ZipEntry ze = new ZipEntry(file); out.putNextEntry(ze); int len; while ((len = in.read(buffer)) > 0) out.write(buffer, 0, len); out.closeEntry(); in.close(); selected.get(i).delete(); } out.close(); } catch (IllegalArgumentException iae) { iae.printStackTrace(); } catch (FileNotFoundException fnfe) { fnfe.printStackTrace(); } catch (IOException ioe) { ioe.printStackTrace(); } }
Code Sample 2:
public static void copyFile(File source, File target) throws Exception { if (source == null || target == null) { throw new IllegalArgumentException("The arguments may not be null."); } try { FileChannel srcChannel = new FileInputStream(source).getChannel(); FileChannel dtnChannel = new FileOutputStream(target).getChannel(); srcChannel.transferTo(0, srcChannel.size(), dtnChannel); srcChannel.close(); dtnChannel.close(); } catch (Exception e) { String message = "Unable to copy file '" + source.getName() + "' to '" + target.getName() + "'."; logger.error(message, e); throw new Exception(message, e); } }
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Code Sample 1:
public HashMap parseFile(File newfile) throws IOException { String s; String[] tokens; int nvalues = 0; double num1, num2, num3; boolean baddata = false; URL url = newfile.toURL(); InputStream is = url.openStream(); InputStreamReader isr = new InputStreamReader(is); BufferedReader br = new BufferedReader(isr); HashMap data = new HashMap(); while ((s = br.readLine()) != null) { tokens = s.split("\\s+"); nvalues = tokens.length; if (nvalues == 2) { data.put(new String(tokens[0]), new Double(Double.parseDouble(tokens[1]))); } else { System.out.println("Sorry, trouble reading reference file."); } } return data; }
Code Sample 2:
public String downloadFromUrl(URL url) { BufferedReader dis; String content = ""; HttpURLConnection urlConn = null; try { urlConn = (HttpURLConnection) url.openConnection(); urlConn.setDoInput(true); urlConn.setUseCaches(false); urlConn.setAllowUserInteraction(false); dis = new BufferedReader(new InputStreamReader(urlConn.getInputStream())); String line; while ((line = dis.readLine()) != null) { content = content.concat(line); content = content.concat("\n"); } } catch (MalformedURLException ex) { System.err.println(ex + " (downloadFromUrl)"); } catch (java.io.IOException iox) { System.out.println(iox + " (downloadFromUrl)"); } catch (Exception generic) { System.out.println(generic.toString() + " (downloadFromUrl)"); } finally { } return content; }
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Code Sample 1:
public static void copy(String sourceFile, String targetFile) throws IOException { FileChannel sourceChannel = new FileInputStream(sourceFile).getChannel(); FileChannel targetChannel = new FileOutputStream(targetFile).getChannel(); targetChannel.transferFrom(sourceChannel, 0, sourceChannel.size()); sourceChannel.close(); targetChannel.close(); }
Code Sample 2:
public static void copyFromFileToFileUsingNIO(File inputFile, File outputFile) throws FileNotFoundException, IOException { FileChannel inputChannel = new FileInputStream(inputFile).getChannel(); FileChannel outputChannel = new FileOutputStream(outputFile).getChannel(); try { inputChannel.transferTo(0, inputChannel.size(), outputChannel); } catch (IOException e) { throw e; } finally { if (inputChannel != null) inputChannel.close(); if (outputChannel != null) outputChannel.close(); } }
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Code Sample 1:
public static void unzipFile(File zipFile, File destFile, boolean removeSrcFile) throws Exception { ZipInputStream zipinputstream = new ZipInputStream(new FileInputStream(zipFile)); ZipEntry zipentry = zipinputstream.getNextEntry(); int BUFFER_SIZE = 4096; while (zipentry != null) { String entryName = zipentry.getName(); log.info("<<<<<< ZipUtility.unzipFile - Extracting: " + zipentry.getName()); File newFile = null; if (destFile.isDirectory()) newFile = new File(destFile, entryName); else newFile = destFile; if (zipentry.isDirectory() || entryName.endsWith(File.separator + ".")) { newFile.mkdirs(); } else { ByteBuffer buffer = ByteBuffer.allocate(BUFFER_SIZE); byte[] bufferArray = buffer.array(); FileUtilities.createDirectory(newFile.getParentFile()); FileChannel destinationChannel = new FileOutputStream(newFile).getChannel(); while (true) { buffer.clear(); int lim = zipinputstream.read(bufferArray); if (lim == -1) break; buffer.flip(); buffer.limit(lim); destinationChannel.write(buffer); } destinationChannel.close(); zipinputstream.closeEntry(); } zipentry = zipinputstream.getNextEntry(); } zipinputstream.close(); if (removeSrcFile) { if (zipFile.exists()) zipFile.delete(); } }
Code Sample 2:
public static void fileCopy(File sourceFile, File destFile) throws IOException { FileChannel source = null; FileChannel destination = null; FileInputStream fis = null; FileOutputStream fos = null; try { fis = new FileInputStream(sourceFile); fos = new FileOutputStream(destFile); source = fis.getChannel(); destination = fos.getChannel(); destination.transferFrom(source, 0, source.size()); } finally { fis.close(); fos.close(); if (source != null) { source.close(); } if (destination != null) { destination.close(); } } }
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Code Sample 1:
public static boolean copyFileCover(String srcFileName, String descFileName, boolean coverlay) { File srcFile = new File(srcFileName); if (!srcFile.exists()) { System.out.println("�����ļ�ʧ�ܣ�Դ�ļ�" + srcFileName + "������!"); return false; } else if (!srcFile.isFile()) { System.out.println("�����ļ�ʧ�ܣ�" + srcFileName + "����һ���ļ�!"); return false; } File descFile = new File(descFileName); if (descFile.exists()) { if (coverlay) { System.out.println("Ŀ���ļ��Ѵ��ڣ���ɾ��!"); if (!FileOperateUtils.delFile(descFileName)) { System.out.println("ɾ��Ŀ���ļ�" + descFileName + "ʧ��!"); return false; } } else { System.out.println("�����ļ�ʧ�ܣ�Ŀ���ļ�" + descFileName + "�Ѵ���!"); return false; } } else { if (!descFile.getParentFile().exists()) { System.out.println("Ŀ���ļ����ڵ�Ŀ¼�����ڣ�����Ŀ¼!"); if (!descFile.getParentFile().mkdirs()) { System.out.println("����Ŀ���ļ����ڵ�Ŀ¼ʧ��!"); return false; } } } int readByte = 0; InputStream ins = null; OutputStream outs = null; try { ins = new FileInputStream(srcFile); outs = new FileOutputStream(descFile); byte[] buf = new byte[1024]; while ((readByte = ins.read(buf)) != -1) { outs.write(buf, 0, readByte); } System.out.println("���Ƶ����ļ�" + srcFileName + "��" + descFileName + "�ɹ�!"); return true; } catch (Exception e) { System.out.println("�����ļ�ʧ�ܣ�" + e.getMessage()); return false; } finally { if (outs != null) { try { outs.close(); } catch (IOException oute) { oute.printStackTrace(); } } if (ins != null) { try { ins.close(); } catch (IOException ine) { ine.printStackTrace(); } } } }
Code Sample 2:
public static Document getDocument(URL url, boolean validate) throws QTIParseException { try { return getDocument(new InputSource(url.openStream()), validate, null); } catch (IOException ex) { throw new QTIParseException(ex); } }
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Code Sample 1:
private void exportJar(File root, List<File> list, Manifest manifest) throws Exception { JarOutputStream jarOut = null; FileInputStream fin = null; try { jarOut = new JarOutputStream(new FileOutputStream(jarFile), manifest); for (int i = 0; i < list.size(); i++) { String filename = list.get(i).getAbsolutePath(); filename = filename.substring(root.getAbsolutePath().length() + 1); fin = new FileInputStream(list.get(i)); JarEntry entry = new JarEntry(filename.replace('\\', '/')); jarOut.putNextEntry(entry); byte[] buf = new byte[4096]; int read; while ((read = fin.read(buf)) != -1) { jarOut.write(buf, 0, read); } jarOut.closeEntry(); jarOut.flush(); } } finally { if (fin != null) { try { fin.close(); } catch (Exception e) { ExceptionOperation.operate(e); } } if (jarOut != null) { try { jarOut.close(); } catch (Exception e) { } } } }
Code Sample 2:
private static boolean copyFile(File srcFile, File tagFile) throws IOException { if (srcFile == null || tagFile == null) { return false; } int length = 2097152; FileInputStream in = new FileInputStream(srcFile); FileOutputStream out = new FileOutputStream(tagFile); FileChannel inC = in.getChannel(); FileChannel outC = out.getChannel(); int i = 0; while (true) { if (inC.position() == inC.size()) { inC.close(); outC.close(); break; } if ((inC.size() - inC.position()) < 20971520) length = (int) (inC.size() - inC.position()); else length = 20971520; inC.transferTo(inC.position(), length, outC); inC.position(inC.position() + length); i++; } return true; }
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Code Sample 1:
public int deleteRecord(Publisher publisher, MmdQueryCriteria criteria) throws Exception { int nRows = 0; if (!publisher.getIsAdministrator()) { throw new ImsServiceException("DeleteRecordsRequest: not authorized."); } PreparedStatement st = null; ManagedConnection mc = returnConnection(); Connection con = mc.getJdbcConnection(); DatabaseMetaData dmt = con.getMetaData(); String database = dmt.getDatabaseProductName().toLowerCase(); boolean autoCommit = con.getAutoCommit(); con.setAutoCommit(false); try { StringBuilder sbWhere = new StringBuilder(); Map<String, Object> args = criteria.appendWherePhrase(null, sbWhere, publisher); StringBuilder sbData = new StringBuilder(); if (database.contains("mysql")) { sbData.append(" DELETE ").append(getResourceDataTableName()).append(" FROM ").append(getResourceDataTableName()); sbData.append(" LEFT JOIN ").append(getResourceTableName()); sbData.append(" ON ").append(getResourceDataTableName()).append(".ID=").append(getResourceTableName()).append(".ID WHERE ").append(getResourceTableName()).append(".ID in ("); sbData.append(" SELECT ID FROM ").append(getResourceTableName()).append(" "); if (sbWhere.length() > 0) { sbData.append(" WHERE ").append(sbWhere.toString()); } sbData.append(")"); } else { sbData.append(" DELETE FROM ").append(getResourceDataTableName()); sbData.append(" WHERE ").append(getResourceDataTableName()).append(".ID in ("); sbData.append(" SELECT ID FROM ").append(getResourceTableName()).append(" "); if (sbWhere.length() > 0) { sbData.append(" WHERE ").append(sbWhere.toString()); } sbData.append(")"); } st = con.prepareStatement(sbData.toString()); criteria.applyArgs(st, 1, args); logExpression(sbData.toString()); st.executeUpdate(); StringBuilder sbSql = new StringBuilder(); sbSql.append("DELETE FROM ").append(getResourceTableName()).append(" "); if (sbWhere.length() > 0) { sbSql.append(" WHERE ").append(sbWhere.toString()); } closeStatement(st); st = con.prepareStatement(sbSql.toString()); criteria.applyArgs(st, 1, args); logExpression(sbSql.toString()); nRows = st.executeUpdate(); con.commit(); } catch (Exception ex) { con.rollback(); throw ex; } finally { closeStatement(st); con.setAutoCommit(autoCommit); } return nRows; }
Code Sample 2:
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; } } }
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Code Sample 1:
public static void writeToPetrify(TransitionSystem ts, Writer bw) throws IOException { File temp = new File("_temp"); BufferedWriter tw = new BufferedWriter(new FileWriter(temp)); BufferedReader tr = new BufferedReader(new FileReader(temp)); HashSet<ModelGraphVertex> sources = new HashSet<ModelGraphVertex>(); HashSet<ModelGraphVertex> dests = new HashSet<ModelGraphVertex>(); ArrayList transitions = ts.getEdges(); HashSet<String> events = new HashSet<String>(); for (int i = 0; i < transitions.size(); i++) { TransitionSystemEdge transition = (TransitionSystemEdge) transitions.get(i); events.add(replaceBadSymbols(transition.getIdentifier())); sources.add(transition.getSource()); dests.add(transition.getDest()); if (ts.getStateNameFlag() == TransitionSystem.ID) { tw.write("s" + transition.getSource().getId() + " "); tw.write(replaceBadSymbols(transition.getIdentifier()) + " "); tw.write("s" + transition.getDest().getId() + "\n"); } else { tw.write(replaceBadSymbols(transition.getSource().getIdentifier()) + " "); tw.write(replaceBadSymbols(transition.getIdentifier()) + " "); tw.write(replaceBadSymbols(transition.getDest().getIdentifier()) + "\n"); } } tw.close(); bw.write(".model " + ts.getName().replaceAll(" ", "_") + "\n"); bw.write(".dummy "); Iterator it = events.iterator(); while (it.hasNext()) bw.write(it.next() + " "); bw.write("\n"); bw.write(".state graph" + "\n"); int c; while ((c = tr.read()) != -1) bw.write(c); tr.close(); temp.delete(); for (ModelGraphVertex dest : dests) { if (sources.contains(dest)) { sources.remove(dest); } } ModelGraphVertex source = sources.isEmpty() ? null : sources.iterator().next(); if (ts.getStateNameFlag() == TransitionSystem.ID) { if (!ts.hasExplicitEnd()) bw.write(".marking {s0}" + "\n"); else bw.write(".marking {s" + source.getId() + "}\n"); } else if (source != null) { bw.write(".marking {" + replaceBadSymbols(source.getIdentifier()) + "}\n"); } bw.write(".end"); }
Code Sample 2:
public String execute(HttpServletRequest request, HttpServletResponse response, User user, String parameter) throws Exception { long resourceId = ServletRequestUtils.getLongParameter(request, "resourceId", 0L); BinaryAttribute binaryAttribute = resourceManager.readAttribute(resourceId, parameter, user); response.addHeader("Content-Disposition", "attachment; filename=\"" + binaryAttribute.getName() + '"'); String contentType = binaryAttribute.getContentType(); if (contentType != null) { if ("application/x-zip-compressed".equalsIgnoreCase(contentType)) { response.setContentType("application/octet-stream"); } else { response.setContentType(contentType); } } else { response.setContentType("application/octet-stream"); } IOUtils.copy(binaryAttribute.getInputStream(), response.getOutputStream()); return null; }
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Code Sample 1:
private String searchMetabolite(String name) { { BufferedReader in = null; try { String urlName = name; URL url = new URL(urlName); in = new BufferedReader(new InputStreamReader(url.openStream())); String inputLine; Boolean isMetabolite = false; while ((inputLine = in.readLine()) != null) { if (inputLine.contains("Metabolite</h1>")) { isMetabolite = true; } if (inputLine.contains("<td><a href=\"/Metabolites/") && isMetabolite) { String metName = inputLine.substring(inputLine.indexOf("/Metabolites/") + 13, inputLine.indexOf("aspx\" target") + 4); return "http://gmd.mpimp-golm.mpg.de/Metabolites/" + metName; } } in.close(); return name; } catch (IOException ex) { Logger.getLogger(GetGolmIDsTask.class.getName()).log(Level.SEVERE, null, ex); return null; } } }
Code Sample 2:
protected InputStream getInputStream(URL url) { InputStream is = null; if (url != null) { try { is = url.openStream(); } catch (Exception ex) { } } ClassLoader classLoader = Thread.currentThread().getContextClassLoader(); if (is == null) { try { is = classLoader.getResourceAsStream("osworkflow.xml"); } catch (Exception e) { } } if (is == null) { try { is = classLoader.getResourceAsStream("/osworkflow.xml"); } catch (Exception e) { } } if (is == null) { try { is = classLoader.getResourceAsStream("META-INF/osworkflow.xml"); } catch (Exception e) { } } if (is == null) { try { is = classLoader.getResourceAsStream("/META-INF/osworkflow.xml"); } catch (Exception e) { } } return is; }
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Code Sample 1:
private boolean copy(File in, File out) { try { FileInputStream fis = new FileInputStream(in); FileOutputStream fos = new FileOutputStream(out); FileChannel readableChannel = fis.getChannel(); FileChannel writableChannel = fos.getChannel(); writableChannel.truncate(0); writableChannel.transferFrom(readableChannel, 0, readableChannel.size()); fis.close(); fos.close(); return true; } catch (IOException ioe) { System.out.println("Copy Error: IOException during copy\r\n" + ioe.getMessage()); return false; } }
Code Sample 2:
public String md5Encode(String pass) { MessageDigest md = null; try { md = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } md.update(pass.getBytes()); byte[] result = md.digest(); return new String(result); }
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Code Sample 1:
private void update() throws IOException { FileOutputStream out = new FileOutputStream(combined); try { File[] _files = listJavascript(); List<File> files = new ArrayList<File>(Arrays.asList(_files)); files.add(0, new File(jsdir.getAbsolutePath() + "/leemba.js")); files.add(0, new File(jsdir.getAbsolutePath() + "/jquery.min.js")); for (File js : files) { FileInputStream fin = null; try { int count = 0; byte buf[] = new byte[16384]; fin = new FileInputStream(js); while ((count = fin.read(buf)) > 0) out.write(buf, 0, count); } catch (Throwable t) { log.error("Failed to read file: " + js.getAbsolutePath(), t); } finally { if (fin != null) fin.close(); } } } finally { out.close(); } }
Code Sample 2:
void copyFileAscii(String src, String dest) { try { File inputFile = new File(src); File outputFile = new File(dest); 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) { System.err.println(ex.toString()); } }
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Code Sample 1:
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(); }
Code Sample 2:
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(); } }
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11
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Code Sample 1:
public static String digest(String algorithm, String text) { MessageDigest mDigest = null; try { mDigest = MessageDigest.getInstance(algorithm); mDigest.update(text.getBytes(ENCODING)); } catch (NoSuchAlgorithmException nsae) { Logger.error(Encryptor.class, nsae.getMessage(), nsae); } catch (UnsupportedEncodingException uee) { Logger.error(Encryptor.class, uee.getMessage(), uee); } byte raw[] = mDigest.digest(); return (new BASE64Encoder()).encode(raw); }
Code Sample 2:
public static String generateGuid(boolean secure) { MessageDigest md5 = null; String valueBeforeMD5 = null; String valueAfterMD5 = null; StringBuffer sbValueBeforeMD5 = new StringBuffer(); try { md5 = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { System.out.println("Error: " + e); } try { long time = System.currentTimeMillis(); long rand = 0L; if (secure) rand = mySecureRand.nextLong(); else rand = myRand.nextLong(); sbValueBeforeMD5.append(s_id); sbValueBeforeMD5.append(":"); sbValueBeforeMD5.append(Long.toString(time)); sbValueBeforeMD5.append(":"); sbValueBeforeMD5.append(Long.toString(rand)); valueBeforeMD5 = sbValueBeforeMD5.toString(); md5.update(valueBeforeMD5.getBytes()); byte array[] = md5.digest(); StringBuffer sb = new StringBuffer(); for (int j = 0; j < array.length; j++) { int b = array[j] & 0xff; if (b < 16) sb.append('0'); sb.append(Integer.toHexString(b)); } valueAfterMD5 = sb.toString(); } catch (Exception e) { System.out.println("Error:" + e); } String raw = valueAfterMD5.toUpperCase(); StringBuffer sb = new StringBuffer(); sb.append(raw.substring(0, 8)); sb.append("-"); sb.append(raw.substring(8, 12)); sb.append("-"); sb.append(raw.substring(12, 16)); sb.append("-"); sb.append(raw.substring(16, 20)); sb.append("-"); sb.append(raw.substring(20)); return sb.toString(); }
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00
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Code Sample 1:
public void fetchKey() throws IOException { String strurl = MessageFormat.format(keyurl, new Object[] { username, secret, login, session }); StringBuffer result = new StringBuffer(); BufferedReader reader = null; URL url = null; try { url = new URL(strurl); reader = new BufferedReader(new InputStreamReader(url.openStream())); String line = null; while ((line = reader.readLine()) != null) { result.append(line); } } finally { try { if (reader != null) reader.close(); } catch (Exception e) { } } Pattern p = Pattern.compile("<key>(.*)</key>"); Matcher m = p.matcher(result.toString()); if (m.matches()) { this.key = m.group(1); } }
Code Sample 2:
@Override public void backup() { Connection connection = null; PreparedStatement prestm = null; try { if (logger.isInfoEnabled()) logger.info("backup table " + getOrigin() + " start..."); Class.forName(driver); connection = DriverManager.getConnection(url, username, password); String tableExistsResult = ""; prestm = connection.prepareStatement("show tables from " + schema + " like '" + getDestination() + "';"); ResultSet rs = prestm.executeQuery(); if (rs.next()) tableExistsResult = rs.getString(1); rs.close(); prestm.close(); if (StringUtils.isBlank(tableExistsResult)) { String createTableSql = ""; prestm = connection.prepareStatement("show create table " + getOrigin() + ";"); rs = prestm.executeQuery(); if (rs.next()) createTableSql = rs.getString(2); rs.close(); prestm.close(); createTableSql = createTableSql.replaceAll("`" + getOrigin() + "`", "`" + getDestination() + "`"); createTableSql = createTableSql.replaceAll("auto_increment", ""); createTableSql = createTableSql.replaceAll("AUTO_INCREMENT", ""); Matcher matcher = stripRelationTablePattern.matcher(createTableSql); if (matcher.find()) createTableSql = matcher.replaceAll(""); matcher = normalizePattern.matcher(createTableSql); if (matcher.find()) createTableSql = matcher.replaceAll("\n )"); Statement stm = connection.createStatement(); stm.execute(createTableSql); if (logger.isDebugEnabled()) logger.debug("table '" + getDestination() + "' created!"); } else if (logger.isDebugEnabled()) logger.debug("table '" + getDestination() + "' already exists"); Date date = new Date(); date.setTime(TimeUtil.addHours(date, -getHours()).getTimeInMillis()); date.setTime(TimeUtil.getTodayAtMidnight().getTimeInMillis()); if (logger.isInfoEnabled()) logger.info("backuping records before: " + date); long currentRows = 0L; prestm = connection.prepareStatement("select count(*) from " + getOrigin() + " where " + getCondition() + ""); java.sql.Date sqlDate = new java.sql.Date(date.getTime()); prestm.setDate(1, sqlDate); rs = prestm.executeQuery(); if (rs.next()) currentRows = rs.getLong(1); rs.close(); prestm.close(); if (currentRows > 0) { connection.setAutoCommit(false); prestm = connection.prepareStatement("INSERT INTO " + getDestination() + " SELECT * FROM " + getOrigin() + " WHERE " + getCondition()); prestm.setDate(1, sqlDate); int rows = prestm.executeUpdate(); prestm.close(); if (logger.isInfoEnabled()) logger.info(rows + " rows backupped"); prestm = connection.prepareStatement("DELETE FROM " + getOrigin() + " WHERE " + getCondition()); prestm.setDate(1, sqlDate); rows = prestm.executeUpdate(); prestm.close(); connection.commit(); if (logger.isInfoEnabled()) logger.info(rows + " rows deleted"); } else if (logger.isInfoEnabled()) logger.info("no backup need"); if (logger.isInfoEnabled()) logger.info("backup table " + getOrigin() + " end"); } catch (SQLException e) { logger.error(e, e); if (applicationContext != null) applicationContext.publishEvent(new TrapEvent(this, "dbcon", "Errore SQL durante il backup dei dati della tabella " + getOrigin(), e)); try { connection.rollback(); } catch (SQLException e1) { } } catch (Throwable e) { logger.error(e, e); if (applicationContext != null) applicationContext.publishEvent(new TrapEvent(this, "generic", "Errore generico durante il backup dei dati della tabella " + getOrigin(), e)); try { connection.rollback(); } catch (SQLException e1) { } } finally { try { if (prestm != null) prestm.close(); } catch (SQLException e) { } try { if (connection != null) connection.close(); } catch (SQLException e) { } } }
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