label int64 0 1 | func1 stringlengths 173 53.1k | func2 stringlengths 173 53.1k | id int64 0 901k |
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1 | public void save(UploadedFile file, Long student, Long activity) { File destiny = new File(fileFolder, student + "_" + activity + "_" + file.getFileName()); try { IOUtils.copy(file.getFile(), new FileOutputStream(destiny)); } catch (IOException e) { throw new RuntimeException("Erro ao copiar o arquivo.", e); } } | 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!"); } | 17,700 |
1 | public static String hashPassword(String password) { String hashword = null; try { MessageDigest md5 = MessageDigest.getInstance(MESSAGE_DIGEST_ALGORITHM_MD5); md5.update(password.getBytes()); BigInteger hash = new BigInteger(1, md5.digest()); hashword = hash.toString(16); } catch (NoSuchAlgorithmException e) { logger.error("Cannot find algorithm = '" + MESSAGE_DIGEST_ALGORITHM_MD5 + "'", e); throw new IllegalStateException(e); } return pad(hashword, 32, '0'); } | 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); } | 17,701 |
1 | @SuppressWarnings("unchecked") protected void processTransformAction(HttpServletRequest request, HttpServletResponse response, String action) throws Exception { File transformationFile = null; String tr = request.getParameter(Definitions.REQUEST_PARAMNAME_XSLT); if (StringUtils.isNotBlank(tr)) { transformationFile = new File(xslBase, tr); if (!transformationFile.isFile()) { response.sendError(HttpServletResponse.SC_BAD_REQUEST, "Parameter \"" + Definitions.REQUEST_PARAMNAME_XSLT + "\" " + "with value \"" + tr + "\" refers to non existing file"); return; } } StreamResult result; ByteArrayOutputStream baos = null; if (isDevelopmentMode) { baos = new ByteArrayOutputStream(); if (StringUtils.equals(action, "get")) { result = new StreamResult(new Base64.OutputStream(baos, Base64.DECODE)); } else { result = new StreamResult(baos); } } else { if (StringUtils.equals(action, "get")) { result = new StreamResult(new Base64.OutputStream(response.getOutputStream(), Base64.DECODE)); } else { result = new StreamResult(response.getOutputStream()); } } HashMap<String, Object> params = new HashMap<String, Object>(); params.putAll(request.getParameterMap()); params.put("{" + Definitions.CONFIGURATION_NAMESPACE + "}configuration", configuration); params.put("{" + Definitions.REQUEST_NAMESPACE + "}request", request); params.put("{" + Definitions.RESPONSE_NAMESPACE + "}response", response); params.put("{" + Definitions.SESSION_NAMESPACE + "}session", request.getSession()); params.put("{" + Definitions.INFOFUZE_NAMESPACE + "}development-mode", new Boolean(Config.getInstance().isDevelopmentMode())); Transformer transformer = new Transformer(); transformer.setTransformationFile(transformationFile); transformer.setParams(params); transformer.setTransformMode(TransformMode.NORMAL); transformer.setConfiguration(configuration); transformer.setErrorListener(new TransformationErrorListener(response)); transformer.setLogInfo(false); String method = transformer.getOutputProperties().getProperty(OutputKeys.METHOD, "xml"); String contentType; if (method.endsWith("html")) { contentType = Definitions.MIMETYPE_HTML; } else if (method.equals("xml")) { contentType = Definitions.MIMETYPE_XML; } else { contentType = Definitions.MIMETYPE_TEXTPLAIN; } String encoding = transformer.getOutputProperties().getProperty(OutputKeys.ENCODING, "UTF-8"); response.setContentType(contentType + ";charset=" + encoding); DataSourceIf dataSource = new NullSource(); transformer.transform((Source) dataSource, result); if (isDevelopmentMode) { IOUtils.copy(new ByteArrayInputStream(baos.toByteArray()), response.getOutputStream()); } } | 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); } } | 17,702 |
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); } finally { if (inChannel != null) inChannel.close(); if (outChannel != null) outChannel.close(); } } | private void copyFile(File source) throws IOException { File backup = new File(source.getCanonicalPath() + ".backup"); if (!backup.exists()) { FileChannel srcChannel = new FileInputStream(source).getChannel(); backup.createNewFile(); FileChannel dstChannel = new FileOutputStream(backup).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } } | 17,703 |
0 | protected List<String> execute(String queryString, String sVar, String filter) throws UnsupportedEncodingException, IOException { String query = URLEncoder.encode(queryString, "UTF-8"); String urlString = "http://sparql.bibleontology.com/sparql.jsp?sparql=" + query + "&type1=xml"; URL url; BufferedReader br = null; ArrayList<String> values = new ArrayList<String>(); try { url = new URL(urlString); URLConnection conn = url.openConnection(); br = new BufferedReader(new InputStreamReader(conn.getInputStream())); StringBuffer sb = new StringBuffer(); String line; while ((line = br.readLine()) != null) { String sURI = getURI(line); if (sURI != null) { sURI = checkURISyntax(sURI); if (filter == null || sURI.startsWith(filter)) { values.add(sURI); } } } } catch (MalformedURLException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } finally { br.close(); } return values; } | 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; } | 17,704 |
1 | @Transient private String md5sum(String text) { try { MessageDigest md = MessageDigest.getInstance("MD5"); md.reset(); md.update(text.getBytes()); byte messageDigest[] = md.digest(); return bufferToHex(messageDigest, 0, messageDigest.length); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } return null; } | public static byte[] encrypt(String x) throws Exception { java.security.MessageDigest d = null; d = java.security.MessageDigest.getInstance("SHA-1"); d.reset(); d.update(x.getBytes()); return d.digest(); } | 17,705 |
0 | public static String getWebContent(String remoteUrl) { StringBuffer sb = new StringBuffer(); try { java.net.URL url = new java.net.URL(remoteUrl); BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); String line; while ((line = in.readLine()) != null) { sb.append(line); } in.close(); } catch (Exception e) { logger.error("获取远程网址内容失败 - " + remoteUrl, e); } return sb.toString(); } | public void loginOAuth() throws OAuthMessageSignerException, OAuthExpectationFailedException, OAuthCommunicationException, ClientProtocolException, IOException, IllegalStateException, SAXException, ParserConfigurationException, FactoryConfigurationError, AndroidException { String url = getAuthentificationURL(); HttpGet reqLogin = new HttpGet(url); consumer = new CommonsHttpOAuthConsumer(getConsumerKey(), getConsumerSecret()); consumer.sign(reqLogin); HttpClient httpClient = new DefaultHttpClient(); HttpResponse resLogin = httpClient.execute(reqLogin); if (resLogin.getEntity() == null) { throw new AuthRemoteException(); } Document document = DocumentBuilderFactory.newInstance().newDocumentBuilder().parse(resLogin.getEntity().getContent()); Element eOAuthToken = (Element) document.getElementsByTagName("oauth_token").item(0); if (eOAuthToken == null) { throw new AuthRemoteException(); } Node e = eOAuthToken.getFirstChild(); String sOAuthToken = e.getNodeValue(); System.out.println("token: " + sOAuthToken); Element eOAuthTokenSecret = (Element) document.getElementsByTagName("oauth_token_secret").item(0); if (eOAuthTokenSecret == null) { throw new AuthRemoteException(); } e = eOAuthTokenSecret.getFirstChild(); String sOAuthTokenSecret = e.getNodeValue(); System.out.println("Secret: " + sOAuthTokenSecret); consumer.setTokenWithSecret(sOAuthToken, sOAuthTokenSecret); } | 17,706 |
0 | public File mergeDoc(URL urlDoc, File fOutput, boolean bMulti) throws Exception { if (s_log.isTraceEnabled()) trace(0, "Copying from " + urlDoc.toString() + " to " + fOutput.toString()); File fOut = null; InputStream is = null; try { is = urlDoc.openStream(); fOut = mergeDoc(is, fOutput, bMulti); } finally { is.close(); } return fOut; } | static ConversionMap create(String file) { ConversionMap out = new ConversionMap(); URL url = ConversionMap.class.getResource(file); try { BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); String line = in.readLine(); while (line != null) { if (line.length() > 0) { String[] arr = line.split("\t"); try { double value = Double.parseDouble(arr[1]); out.put(translate(lowercase(arr[0].getBytes())), value); out.defaultValue += value; out.length = arr[0].length(); } catch (NumberFormatException e) { throw new RuntimeException("Something is wrong with in conversion file: " + e); } } line = in.readLine(); } in.close(); out.defaultValue /= Math.pow(4, out.length); } catch (Exception e) { e.printStackTrace(); throw new RuntimeException("Their was an error while reading the conversion map: " + e); } return out; } | 17,707 |
0 | protected Scanner createScanner(InputSource source) { documentURI = source.getURI(); if (documentURI == null) { documentURI = ""; } Reader r = source.getCharacterStream(); if (r != null) { return new Scanner(r); } InputStream is = source.getByteStream(); if (is != null) { return new Scanner(is, source.getEncoding()); } String uri = source.getURI(); if (uri == null) { throw new CSSException(formatMessage("empty.source", null)); } try { ParsedURL purl = new ParsedURL(uri); is = purl.openStreamRaw(CSSConstants.CSS_MIME_TYPE); return new Scanner(is, source.getEncoding()); } catch (IOException e) { throw new CSSException(e); } } | public static String getMd5Digest(String pInput) { try { MessageDigest lDigest = MessageDigest.getInstance("MD5"); lDigest.update(pInput.getBytes()); BigInteger lHashInt = new BigInteger(1, lDigest.digest()); return String.format("%1$032x", lHashInt).toLowerCase(); } catch (NoSuchAlgorithmException lException) { throw new RuntimeException(lException); } } | 17,708 |
0 | private void execute(String file, String[] ebms, String[] eems, String[] ims, String[] efms) throws BuildException { if (verbose) { System.out.println("Preprocessing file " + file + " (type: " + type + ")"); } try { File targetFile = new File(file); FileReader fr = new FileReader(targetFile); BufferedReader reader = new BufferedReader(fr); File preprocFile = File.createTempFile(targetFile.getName(), "tmp", targetFile.getParentFile()); FileWriter fw = new FileWriter(preprocFile); BufferedWriter writer = new BufferedWriter(fw); int result = preprocess(reader, writer, ebms, eems, ims, efms); reader.close(); writer.close(); switch(result) { case OVERWRITE: if (!targetFile.delete()) { System.out.println("Can't overwrite target file with preprocessed file"); throw new BuildException("Can't overwrite target file " + target + " with preprocessed file"); } preprocFile.renameTo(targetFile); if (verbose) { System.out.println("File " + preprocFile.getName() + " modified."); } modifiedCnt++; break; case REMOVE: if (!targetFile.delete()) { System.out.println("Can't delete target file"); throw new BuildException("Can't delete target file " + target); } if (!preprocFile.delete()) { System.out.println("Can't delete temporary preprocessed file " + preprocFile.getName()); throw new BuildException("Can't delete temporary preprocessed file " + preprocFile.getName()); } if (verbose) { System.out.println("File " + preprocFile.getName() + " removed."); } removedCnt++; break; case KEEP: if (!preprocFile.delete()) { System.out.println("Can't delete temporary preprocessed file " + preprocFile.getName()); throw new BuildException("Can't delete temporary preprocessed file " + preprocFile.getName()); } break; default: throw new BuildException("Unexpected preprocessing result for file " + preprocFile.getName()); } } catch (Exception e) { e.printStackTrace(); throw new BuildException(e.getMessage()); } } | public String setEncryptedPassword(String rawPassword) { String out = null; try { MessageDigest md = MessageDigest.getInstance("MD5"); md.reset(); md.update(rawPassword.getBytes()); byte raw[] = md.digest(); out = new String(); for (int x = 0; x < raw.length; x++) { String hex2 = Integer.toHexString((int) raw[x] & 0xFF); if (1 == hex2.length()) { hex2 = "0" + hex2; } out += hex2; int a = 1; } } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } return out; } | 17,709 |
1 | public boolean renameTo(File dest) throws IOException { if (dest == null) { throw new NullPointerException("dest"); } if (!file.renameTo(dest)) { FileInputStream inputStream = new FileInputStream(file); FileOutputStream outputStream = new FileOutputStream(dest); FileChannel in = inputStream.getChannel(); FileChannel out = outputStream.getChannel(); long destsize = in.transferTo(0, size, out); in.close(); out.close(); if (destsize == size) { file.delete(); file = dest; isRenamed = true; return true; } else { dest.delete(); return false; } } file = dest; isRenamed = true; return true; } | public static void fileCopy(final File src, final File dest, final boolean overwrite) throws IOException { if (!dest.exists() || (dest.exists() && overwrite)) { final FileChannel srcChannel = new FileInputStream(src).getChannel(); final FileChannel dstChannel = new FileOutputStream(dest).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } } | 17,710 |
1 | private String hash(String text) throws NoSuchAlgorithmException { MessageDigest md5 = MessageDigest.getInstance("MD5"); md5.update(text.getBytes()); BigInteger hash = new BigInteger(1, md5.digest()); return hash.toString(16); } | public static String calcolaMd5(String messaggio) { MessageDigest md; try { md = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { throw new RuntimeException(e); } md.reset(); md.update(messaggio.getBytes()); byte[] impronta = md.digest(); return new String(impronta); } | 17,711 |
0 | 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); } } | 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(); } | 17,712 |
1 | public static void copyFile(String fromFilePath, String toFilePath, boolean overwrite) throws IOException { File fromFile = new File(fromFilePath); File toFile = new File(toFilePath); if (!fromFile.exists()) throw new IOException("FileCopy: " + "no such source file: " + fromFilePath); if (!fromFile.isFile()) throw new IOException("FileCopy: " + "can't copy directory: " + fromFilePath); if (!fromFile.canRead()) throw new IOException("FileCopy: " + "source file is unreadable: " + fromFilePath); if (toFile.isDirectory()) toFile = new File(toFile, fromFile.getName()); if (toFile.exists()) { if (!overwrite) { throw new IOException(toFilePath + " already exists!"); } if (!toFile.canWrite()) { throw new IOException("FileCopy: destination file is unwriteable: " + toFilePath); } String parent = toFile.getParent(); if (parent == null) { parent = System.getProperty("user.dir"); } File dir = new File(parent); if (!dir.exists()) { throw new IOException("FileCopy: destination directory doesn't exist: " + parent); } if (dir.isFile()) { throw new IOException("FileCopy: destination is not a directory: " + parent); } if (!dir.canWrite()) { throw new IOException("FileCopy: destination directory is unwriteable: " + parent); } } FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(fromFile); to = new FileOutputStream(toFile); byte[] buffer = new byte[4096]; int bytesRead; while ((bytesRead = from.read(buffer)) != -1) to.write(buffer, 0, bytesRead); } finally { long lastModified = fromFile.lastModified(); toFile.setLastModified(lastModified); if (from != null) { try { from.close(); } catch (IOException e) { } } if (to != null) { try { to.close(); } catch (IOException e) { } } } } | 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.*;"); importList.add("java.sql.Date;"); importList.add("com.emeraldjb.runtime.patternXmlObj.*;"); importList.add("javax.xml.parsers.*;"); importList.add("java.text.ParseException;"); importList.add("org.xml.sax.*;"); importList.add("org.xml.sax.helpers.*;"); 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"); boolean short_version = entity.getPatternBooleanValue(GeneratorConst.PATTERN_STREAM_XML_SHORT, false); StringBuffer preface = new StringBuffer(); StringBuffer consts = new StringBuffer(); StringBuffer f_writer = new StringBuffer(); StringBuffer f_writer_short = new StringBuffer(); StringBuffer f_reader = new StringBuffer(); StringBuffer end_elems = new StringBuffer(); boolean end_elem_needs_catch = false; consts.append("\n public static final String EL_CLASS_TAG=\"" + values_class_name + "\";"); preface.append("\n xos.print(\"<!-- This format is optimised for space, below are the column mappings\");"); boolean has_times = false; boolean has_strings = false; it = entity.getMembers().iterator(); int col_num = 0; while (it.hasNext()) { col_num++; Member member = (Member) it.next(); String nm = member.getName(); preface.append("\n xos.print(\"c" + col_num + " = " + nm + "\");"); String elem_name = nm; String elem_name_short = "c" + col_num; String el_name = nm.toUpperCase(); if (member.getColLen() > 0 || !member.isNullAllowed()) { end_elem_needs_catch = true; } String element_const = "EL_" + el_name; String element_const_short = "EL_" + el_name + "_SHORT"; consts.append("\n public static final String " + element_const + "=\"" + elem_name + "\";" + "\n public static final String " + element_const_short + "=\"" + elem_name_short + "\";"); String getter = "obj." + methodGenerator.getMethodName(DaoGeneratorUtils.METHOD_GET, member); String setter = "values_." + methodGenerator.getMethodName(DaoGeneratorUtils.METHOD_SET, member); String pad = " "; JTypeBase gen_type = EmdFactory.getJTypeFactory().getJavaType(member.getType()); f_writer.append(gen_type.getToXmlCode(pad, element_const, getter + "()")); f_writer_short.append(gen_type.getToXmlCode(pad, element_const_short, getter + "()")); end_elems.append(gen_type.getFromXmlCode(pad, element_const, setter)); end_elems.append("\n //and also the short version"); end_elems.append(gen_type.getFromXmlCode(pad, element_const_short, setter)); } preface.append("\n xos.print(\"-->\");"); String body_part = f_writer.toString(); String body_part_short = preface.toString() + f_writer_short.toString(); String reader_vars = ""; String streamer_class_name = getClassName(entity); sb.append("public class " + streamer_class_name + " extends DefaultHandler implements TSParser\n"); sb.append("{" + consts + "\n public static final int PROTO_VERSION=" + proto_version + ";" + "\n private transient StringBuffer cdata_=new StringBuffer();" + "\n private transient String endElement_;" + "\n private transient TSParser parentParser_;" + "\n private transient XMLReader theReader_;\n" + "\n private " + values_class_name + " values_;"); sb.append("\n\n"); sb.append("\n /**" + "\n * This is really only here as an example. It is very rare to write a single" + "\n * object to a file - far more likely to have a collection or object graph. " + "\n * in which case you can write something similar - maybe using the writeXmlShort" + "\n * version instread." + "\n */" + "\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 XmlOutputFilter xos = new XmlOutputFilter(fos);" + "\n xos.openElement(\"FILE_\"+EL_CLASS_TAG);" + "\n writeXml(xos, obj);" + "\n xos.closeElement();" + "\n fos.close();" + "\n } // end of writeToFile" + "\n" + "\n public static void readFromFile(String file_nm, " + values_class_name + " obj) throws IOException, SAXException" + "\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 marshalFromXml(dis, obj);" + "\n fis.close();" + "\n } // end of readFromFile" + "\n" + "\n public static void writeXml(XmlOutputFilter xos, " + values_class_name + " obj) throws IOException" + "\n {" + "\n xos.openElement(EL_CLASS_TAG);" + body_part + "\n xos.closeElement();" + "\n } // end of writeXml" + "\n" + "\n public static void writeXmlShort(XmlOutputFilter xos, " + values_class_name + " obj) throws IOException" + "\n {" + "\n xos.openElement(EL_CLASS_TAG);" + body_part_short + "\n xos.closeElement();" + "\n } // end of writeXml" + "\n" + "\n public " + streamer_class_name + "(" + values_class_name + " obj) {" + "\n values_ = obj;" + "\n } // end of ctor" + "\n"); String xml_bit = addXmlFunctions(streamer_class_name, values_class_name, end_elem_needs_catch, end_elems, f_reader); String close = "\n" + "\n} // end of classs" + "\n\n" + "\n//**************" + "\n// End of file" + "\n//**************"; return sb.toString() + xml_bit + close; } | 17,713 |
1 | public void testSystemPropertyConnector() throws Exception { final String rootFolderPath = "test/ConnectorTest/fs/".toLowerCase(); final Connector connector = new SystemPropertyConnector(); final ContentResolver contentResolver = new UnionContentResolver(); final FSContentResolver fsContentResolver = new FSContentResolver(); fsContentResolver.setRootFolderPath(rootFolderPath); contentResolver.addContentResolver(fsContentResolver); contentResolver.addContentResolver(new ClasspathContentResolver()); connector.setContentResolver(contentResolver); String resultString; byte[] resultContent; Object resultObject; resultString = connector.getString("helloWorldPath"); assertNull(resultString); resultContent = connector.getContent("helloWorldPath"); assertNull(resultContent); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); System.setProperty("helloWorldPath", "org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); assertNotNull(resultContent); assertEquals("Hello World 2", new String(resultContent, "UTF-8")); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); System.setProperty("helloWorldPath", "file:org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("file:org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); assertNull(resultObject); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); System.setProperty("helloWorldPath", "classpath:org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("classpath:org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); assertNotNull(resultContent); assertEquals("Hello World 2", new String(resultContent, "UTF-8")); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); final InputStream helloWorldIS = new ByteArrayInputStream("Hello World 2 - Test".getBytes("UTF-8")); FileUtils.forceMkdir(new File(rootFolderPath + "/org/settings4j/connector")); final String helloWorldPath = rootFolderPath + "/org/settings4j/connector/HelloWorld2.txt"; final FileOutputStream fileOutputStream = new FileOutputStream(new File(helloWorldPath)); IOUtils.copy(helloWorldIS, fileOutputStream); IOUtils.closeQuietly(helloWorldIS); IOUtils.closeQuietly(fileOutputStream); LOG.info("helloWorld2Path: " + helloWorldPath); System.setProperty("helloWorldPath", "file:org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("file:org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); assertNotNull(resultContent); assertEquals("Hello World 2 - Test", new String(resultContent, "UTF-8")); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); System.setProperty("helloWorldPath", "org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); resultContent = connector.getContent("helloWorldPath"); assertNotNull(resultContent); assertEquals("Hello World 2 - Test", new String(resultContent, "UTF-8")); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); System.setProperty("helloWorldPath", "classpath:org/settings4j/connector/HelloWorld2.txt"); resultString = connector.getString("helloWorldPath"); assertNotNull(resultString); assertEquals("classpath:org/settings4j/connector/HelloWorld2.txt", resultString); resultContent = connector.getContent("helloWorldPath"); assertNotNull(resultContent); assertEquals("Hello World 2", new String(resultContent, "UTF-8")); resultObject = connector.getObject("helloWorldPath"); assertNull(resultObject); } | public void testOptionalSections() throws Exception { final File implementationDirectory = this.getTestSourcesDirectory(); final File specificationDirectory = this.getTestSourcesDirectory(); IOUtils.copy(this.getClass().getResourceAsStream("ImplementationWithoutConstructorsSection.java.txt"), new FileOutputStream(new File(implementationDirectory, "Implementation.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("ImplementationWithoutDefaultConstructorSection.java.txt"), new FileOutputStream(new File(implementationDirectory, "Implementation.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("ImplementationWithoutDocumentationSection.java.txt"), new FileOutputStream(new File(implementationDirectory, "Implementation.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("ImplementationWithoutLicenseSection.java.txt"), new FileOutputStream(new File(implementationDirectory, "Implementation.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getImplementation("Implementation"), implementationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("SpecificationWithoutDocumentationSection.java.txt"), new FileOutputStream(new File(specificationDirectory, "Specification.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), specificationDirectory); IOUtils.copy(this.getClass().getResourceAsStream("SpecificationWithoutLicenseSection.java.txt"), new FileOutputStream(new File(specificationDirectory, "Specification.java"))); this.getTestTool().manageSources(this.getTestTool().getModules().getSpecification("Specification"), specificationDirectory); } | 17,714 |
1 | @Override public String toString() { if (byteArrayOutputStream == null) return "<Unparsed binary data: Content-Type=" + getHeader("Content-Type") + " >"; String charsetName = getCharsetName(); if (charsetName == null) charsetName = "ISO-8859-1"; try { if (unzip) { GZIPInputStream gzipInputStream = new GZIPInputStream(new ByteArrayInputStream(byteArrayOutputStream.toByteArray())); ByteArrayOutputStream unzippedResult = new ByteArrayOutputStream(); IOUtils.copy(gzipInputStream, unzippedResult); return unzippedResult.toString(charsetName); } else { return byteArrayOutputStream.toString(charsetName); } } catch (UnsupportedEncodingException e) { throw new OutputException(e); } catch (IOException e) { throw new OutputException(e); } } | private void copyOutResource(String dstPath, InputStream in) throws FileNotFoundException, IOException { FileOutputStream out = null; try { dstPath = this.outputDir + dstPath; File file = new File(dstPath); file.getParentFile().mkdirs(); out = new FileOutputStream(file); IOUtils.copy(in, out); } finally { if (out != null) { out.close(); } } } | 17,715 |
0 | public static String digestMd5(String str) { if (str == null || str.length() == 0) { throw new IllegalArgumentException("文字列がNull、または空です。"); } MessageDigest md5; byte[] enclyptedHash; try { md5 = MessageDigest.getInstance("MD5"); md5.update(str.getBytes()); enclyptedHash = md5.digest(); } catch (NoSuchAlgorithmException ex) { ex.printStackTrace(); return ""; } return bytesToHexString(enclyptedHash); } | private void copyFileToPhotoFolder(File photo, String personId) { try { FileChannel in = new FileInputStream(photo).getChannel(); File dirServer = new File(Constants.PHOTO_DIR); if (!dirServer.exists()) { dirServer.mkdirs(); } File fileServer = new File(Constants.PHOTO_DIR + personId + ".jpg"); if (!fileServer.exists()) { fileServer.createNewFile(); } in.transferTo(0, in.size(), new FileOutputStream(fileServer).getChannel()); } catch (FileNotFoundException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } } | 17,716 |
0 | private void handleInclude(Element elem) throws Exception { String source = getTextContent(elem); URL url = null; try { url = new URL(source); } catch (MalformedURLException e) { url = XmlConfig.class.getResource(source); } Document doc = db.parse(url.openStream()); handleDocument(doc); } | public static void main(String[] argv) { if (1 < argv.length) { File[] sources = Source(argv[0]); if (null != sources) { for (File src : sources) { File[] targets = Target(src, argv); if (null != targets) { final long srclen = src.length(); try { FileChannel source = new FileInputStream(src).getChannel(); try { for (File tgt : targets) { FileChannel target = new FileOutputStream(tgt).getChannel(); try { source.transferTo(0L, srclen, target); } finally { target.close(); } System.out.printf("Updated %s\n", tgt.getPath()); File[] deletes = Delete(src, tgt); if (null != deletes) { for (File del : deletes) { if (SVN) { if (SvnDelete(del)) System.out.printf("Deleted %s\n", del.getPath()); else System.out.printf("Failed to delete %s\n", del.getPath()); } else if (del.delete()) System.out.printf("Deleted %s\n", del.getPath()); else System.out.printf("Failed to delete %s\n", del.getPath()); } } if (SVN) SvnAdd(tgt); } } finally { source.close(); } } catch (Exception exc) { exc.printStackTrace(); System.exit(1); } } } System.exit(0); } else { System.err.printf("Source file(s) not found in '%s'\n", argv[0]); System.exit(1); } } else { usage(); System.exit(1); } } | 17,717 |
1 | @Override protected void writeFile() { super.writeFile(); try { String tagListFilePath = file.toURI().toASCIIString(); tagListFilePath = tagListFilePath.substring(0, tagListFilePath.lastIndexOf(FileManager.GLIPS_VIEW_EXTENSION)) + FileManager.TAG_LIST_FILE_EXTENSION; File tagListFile = new File(new URI(tagListFilePath)); StringBuffer buffer = new StringBuffer(""); for (String tagName : tags) { buffer.append(tagName + "\n"); } ByteBuffer byteBuffer = ByteBuffer.wrap(buffer.toString().getBytes("UTF-8")); FileOutputStream out = new FileOutputStream(tagListFile); FileChannel channel = out.getChannel(); channel.write(byteBuffer); channel.close(); } catch (Exception ex) { } try { String parentPath = file.getParentFile().toURI().toASCIIString(); if (!parentPath.endsWith("/")) { parentPath += "/"; } File srcFile = null, destFile = null; byte[] tab = new byte[1000]; int nb = 0; InputStream in = null; OutputStream out = null; for (String destinationName : dataBaseFiles.keySet()) { srcFile = dataBaseFiles.get(destinationName); if (srcFile != null) { destFile = new File(new URI(parentPath + destinationName)); in = new BufferedInputStream(new FileInputStream(srcFile)); out = new BufferedOutputStream(new FileOutputStream(destFile)); while (in.available() > 0) { nb = in.read(tab); if (nb > 0) { out.write(tab, 0, nb); } } in.close(); out.flush(); out.close(); } } } catch (Exception ex) { ex.printStackTrace(); } } | 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); } } | 17,718 |
1 | public void run() { GZIPInputStream gzipInputStream = null; try { gzipInputStream = new GZIPInputStream(pipedInputStream); IOUtils.copy(gzipInputStream, outputStream); } catch (Throwable t) { ungzipThreadThrowableList.add(t); } finally { IOUtils.closeQuietly(gzipInputStream); IOUtils.closeQuietly(pipedInputStream); } } | @Test public void testWriteAndReadFirstLevel() throws Exception { JCFSFileServer server = new JCFSFileServer(defaultTcpPort, defaultTcpAddress, defaultUdpPort, defaultUdpAddress, dir, 0, 0); JCFS.configureDiscovery(defaultUdpAddress, defaultUdpPort); try { server.start(); RFile directory1 = new RFile("directory1"); RFile file = new RFile(directory1, "testreadwrite1st.txt"); RFileOutputStream out = new RFileOutputStream(file); out.write("test".getBytes("utf-8")); out.close(); RFileInputStream in = new RFileInputStream(file); byte[] buffer = new byte[4]; int readCount = in.read(buffer); in.close(); assertEquals(4, readCount); String resultRead = new String(buffer, "utf-8"); assertEquals("test", resultRead); } finally { server.stop(); } } | 17,719 |
1 | public static String computeMD5(InputStream input) { InputStream digestStream = null; try { MessageDigest md5 = MessageDigest.getInstance("MD5"); digestStream = new DigestInputStream(input, md5); IOUtils.copy(digestStream, new NullOutputStream()); return new String(Base64.encodeBase64(md5.digest()), "UTF-8"); } catch (NoSuchAlgorithmException e) { throw new RuntimeException(e); } catch (IOException e) { throw new RuntimeException(e); } finally { IOUtils.closeQuietly(digestStream); } } | @Override public void close() throws IOException { super.close(); byte[] signatureData = toByteArray(); ZipOutputStream zipOutputStream = new ZipOutputStream(this.targetOutputStream); ZipInputStream zipInputStream = new ZipInputStream(new FileInputStream(this.originalZipFile)); ZipEntry zipEntry; while (null != (zipEntry = zipInputStream.getNextEntry())) { if (!zipEntry.getName().equals(ODFUtil.SIGNATURE_FILE)) { ZipEntry newZipEntry = new ZipEntry(zipEntry.getName()); zipOutputStream.putNextEntry(newZipEntry); LOG.debug("copying " + zipEntry.getName()); IOUtils.copy(zipInputStream, zipOutputStream); } } zipInputStream.close(); zipEntry = new ZipEntry(ODFUtil.SIGNATURE_FILE); LOG.debug("writing " + zipEntry.getName()); zipOutputStream.putNextEntry(zipEntry); IOUtils.write(signatureData, zipOutputStream); zipOutputStream.close(); } | 17,720 |
1 | private JButton getButtonImagen() { if (buttonImagen == null) { buttonImagen = new JButton(); buttonImagen.setText(Messages.getString("gui.AdministracionResorces.6")); buttonImagen.setIcon(new ImageIcon(getClass().getResource("/es/unizar/cps/tecnoDiscap/data/icons/view_sidetree.png"))); buttonImagen.addActionListener(new java.awt.event.ActionListener() { public void actionPerformed(java.awt.event.ActionEvent e) { JFileChooser fc = new JFileChooser(); fc.addChoosableFileFilter(new ImageFilter()); fc.setAccessory(new ImagePreview(fc)); int returnVal = fc.showDialog(AdministracionResorces.this, Messages.getString("gui.AdministracionResorces.8")); if (returnVal == JFileChooser.APPROVE_OPTION) { File file = fc.getSelectedFile(); String rutaGlobal = System.getProperty("user.dir") + "/" + rutaDatos + "imagenes/" + file.getName(); String rutaRelativa = rutaDatos + "imagenes/" + file.getName(); try { FileInputStream fis = new FileInputStream(file); FileOutputStream fos = new FileOutputStream(rutaGlobal, true); FileChannel canalFuente = fis.getChannel(); FileChannel canalDestino = fos.getChannel(); canalFuente.transferTo(0, canalFuente.size(), canalDestino); fis.close(); fos.close(); imagen.setImagenURL(rutaRelativa); gui.getEntrenamientoIzquierdaLabel().setIcon(gui.getProcesadorDatos().escalaImageIcon(((Imagen) gui.getComboBoxImagenesIzquierda().getSelectedItem()).getImagenURL())); gui.getEntrenamientoDerechaLabel().setIcon(gui.getProcesadorDatos().escalaImageIcon(((Imagen) gui.getComboBoxImagenesDerecha().getSelectedItem()).getImagenURL())); buttonImagen.setIcon(new ImageIcon(getClass().getResource("/es/unizar/cps/tecnoDiscap/data/icons/view_sidetreeOK.png"))); labelImagenPreview.setIcon(gui.getProcesadorDatos().escalaImageIcon(imagen.getImagenURL())); } catch (IOException ex) { ex.printStackTrace(); } } else { } } }); } return buttonImagen; } | protected List<Datastream> getDatastreams(final DepositCollection pDeposit) throws IOException, SWORDException { LOG.debug("copying file"); String tTempFileName = this.getTempDir() + "uploaded-file.tmp"; IOUtils.copy(pDeposit.getFile(), new FileOutputStream(tTempFileName)); Datastream tDatastream = new LocalDatastream(this.getGenericFileName(pDeposit), this.getContentType(), tTempFileName); List<Datastream> tDatastreams = new ArrayList<Datastream>(); tDatastreams.add(tDatastream); return tDatastreams; } | 17,721 |
0 | private static String readGeoJSON(String feature) { StringBuffer content = new StringBuffer(); try { URL url = new URL(feature); HttpURLConnection conn = (HttpURLConnection) url.openConnection(); conn.connect(); BufferedReader rd = new BufferedReader(new InputStreamReader(conn.getInputStream())); String line; while ((line = rd.readLine()) != null) { content.append(line); } conn.disconnect(); } catch (Exception e) { } return content.toString(); } | public final Matrix2D<E> read(final URL url) throws IOException { if (url == null) { throw new IllegalArgumentException("url must not be null"); } InputStream inputStream = null; try { inputStream = url.openStream(); return read(inputStream); } catch (IOException e) { throw e; } finally { MatrixIOUtils.closeQuietly(inputStream); } } | 17,722 |
1 | public static void copyFile(File sourceFile, File destFile, boolean overwrite) throws IOException, DirNotFoundException, FileNotFoundException, FileExistsAlreadyException { File destDir = new File(destFile.getParent()); if (!destDir.exists()) { throw new DirNotFoundException(destDir.getAbsolutePath()); } if (!sourceFile.exists()) { throw new FileNotFoundException(sourceFile.getAbsolutePath()); } if (!overwrite && destFile.exists()) { throw new FileExistsAlreadyException(destFile.getAbsolutePath()); } FileInputStream in = new FileInputStream(sourceFile); FileOutputStream out = new FileOutputStream(destFile); byte[] buffer = new byte[8 * 1024]; int count = 0; do { out.write(buffer, 0, count); count = in.read(buffer, 0, buffer.length); } while (count != -1); in.close(); out.close(); } | 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; } | 17,723 |
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(); } } | public static void copyFile(File in, File out) { if (!in.exists() || !in.canRead()) { LOGGER.warn("Can't copy file : " + in); return; } if (!out.getParentFile().exists()) { if (!out.getParentFile().mkdirs()) { LOGGER.info("Didn't create parent directories : " + out.getParentFile().getAbsolutePath()); } } if (!out.exists()) { try { out.createNewFile(); } catch (IOException e) { LOGGER.error("Exception creating new file : " + out.getAbsolutePath(), e); } } LOGGER.debug("Copying file : " + in + ", to : " + out); FileChannel inChannel = null; FileChannel outChannel = null; FileInputStream fileInputStream = null; FileOutputStream fileOutputStream = null; try { fileInputStream = new FileInputStream(in); inChannel = fileInputStream.getChannel(); fileOutputStream = new FileOutputStream(out); outChannel = fileOutputStream.getChannel(); inChannel.transferTo(0, inChannel.size(), outChannel); } catch (Exception e) { LOGGER.error("Exception copying file : " + in + ", to : " + out, e); } finally { close(fileInputStream); close(fileOutputStream); if (inChannel != null) { try { inChannel.close(); } catch (Exception e) { LOGGER.error("Exception closing input channel : ", e); } } if (outChannel != null) { try { outChannel.close(); } catch (Exception e) { LOGGER.error("Exception closing output channel : ", e); } } } } | 17,724 |
0 | public URI normalize(final URI uri) { URI normalizedUri = super.normalize(uri); if (normalizedUri.equals(uri)) { String resourceName = uri.toString().replaceAll(".*(\\\\+|/)", ""); if (!containsNormalizedUriKey(uri)) { for (Iterator<Path> iterator = this.iteratorModulePaths(); iterator.hasNext(); ) { String searchPath = iterator.next().getPath(); String completePath = this.normalizePath(searchPath + '/' + resourceName); try { InputStream stream = null; URL url = toURL(completePath); if (url != null) { try { stream = url.openStream(); stream.close(); } catch (Exception exception) { url = null; } finally { stream = null; } if (url != null) { normalizedUri = URIUtil.createUri(url.toString()); this.putNormalizedUri(uri, normalizedUri); break; } } } catch (Exception exception) { } } } else { normalizedUri = getNormalizedUri(uri); } } return normalizedUri; } | private void onOKAction() { if (url == null) { optionPane.setValue(JOptionPane.UNINITIALIZED_VALUE); JOptionPane.showMessageDialog(this, "URL field cannot be empty", "Empty URL", JOptionPane.ERROR_MESSAGE); } else { try { URLConnection sourceConnection = url.openConnection(); sourceConnection.setConnectTimeout(10); if (sourceConnection.getContentLength() == -1) { throw new IOException("Can't connect to " + url.toString()); } exit_status = OK; setVisible(false); dispose(); } catch (IOException e) { optionPane.setValue(JOptionPane.UNINITIALIZED_VALUE); JOptionPane.showMessageDialog(this, "Please enter valid, resolvable source and target URLs...\n " + e.getMessage(), "Invalid URL", JOptionPane.ERROR_MESSAGE); } } } | 17,725 |
1 | public static void copyFile(File src, File dest) { try { FileInputStream in = new FileInputStream(src); FileOutputStream out = new FileOutputStream(dest); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); } catch (IOException ioe) { System.err.println(ioe); } } | 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(); } } | 17,726 |
0 | 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(); } } | protected static String getInitialUUID() { if (myRand == null) { myRand = new Random(); } long rand = myRand.nextLong(); String sid; try { sid = InetAddress.getLocalHost().toString(); } catch (UnknownHostException e) { sid = Thread.currentThread().getName(); } StringBuffer sb = new StringBuffer(); sb.append(sid); sb.append(":"); sb.append(Long.toString(rand)); MessageDigest md5 = null; try { md5 = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { throw new OMException(e); } md5.update(sb.toString().getBytes()); byte[] array = md5.digest(); StringBuffer sb2 = new StringBuffer(); for (int j = 0; j < array.length; ++j) { int b = array[j] & 0xFF; sb2.append(Integer.toHexString(b)); } int begin = myRand.nextInt(); if (begin < 0) begin = begin * -1; begin = begin % 8; return sb2.toString().substring(begin, begin + 18).toUpperCase(); } | 17,727 |
0 | public static int[] rank(double[] data) { int[] rank = new int[data.length]; for (int i = 0; i < data.length; i++) rank[i] = i; boolean swapped; double dtmp; int i, j, itmp; for (i = 0; i < data.length - 1; i++) { swapped = false; for (j = 0; j < data.length - 1 - i; j++) { if (data[j] < data[j + 1]) { dtmp = data[j]; data[j] = data[j + 1]; data[j + 1] = dtmp; itmp = rank[j]; rank[j] = rank[j + 1]; rank[j + 1] = itmp; swapped = true; } } } return rank; } | private void writeResponse(final Collection<? extends Resource> resources, final HttpServletResponse response) throws IOException { for (final Resource resource : resources) { InputStream in = null; try { in = resource.getInputStream(); final OutputStream out = response.getOutputStream(); final long bytesCopied = IOUtils.copyLarge(in, out); if (bytesCopied < 0L) throw new StreamCorruptedException("Bad number of copied bytes (" + bytesCopied + ") for resource=" + resource.getFilename()); if (logger.isDebugEnabled()) logger.debug("writeResponse(" + resource.getFile() + ") copied " + bytesCopied + " bytes"); } finally { if (in != null) in.close(); } } } | 17,728 |
0 | @Override public HostRecord addressForHost(String domainName) throws Exception { String fullUrl = requestUrlStub + domainName; URL url = new URL(fullUrl); HttpURLConnection connection = null; connection = null; connection = (HttpURLConnection) url.openConnection(); connection.setRequestMethod("GET"); connection.setDoOutput(true); connection.setReadTimeout(10000); connection.connect(); BufferedReader in = new BufferedReader(new InputStreamReader(connection.getInputStream())); String inputLine; HostRecord result = new HostRecord(domainName); byte parts[] = new byte[4]; while ((inputLine = in.readLine()) != null) { String pat1 = "<span class='orange'>"; String pat2 = "</span>"; int index1 = inputLine.indexOf(pat1); int index2 = inputLine.indexOf(pat2); if ((index1 > 0) && (index2 > 0)) { String ipStr = inputLine.substring(index1 + pat1.length(), index2); String[] s = ipStr.split("\\."); for (int i = 0; i < s.length; i++) parts[i] = (byte) Integer.parseInt(s[i]); } } IPAddress ipAddress = new IPAddress(parts); result.addIpAddress(ipAddress); in.close(); return result; } | public FileBean create(MimeTypeBean mimeType, SanBean san) throws SQLException { long fileId = 0; DataSource ds = getDataSource(DEFAULT_DATASOURCE); Connection conn = ds.getConnection(); try { conn.setAutoCommit(false); Statement stmt = conn.createStatement(); stmt.execute(NEXT_FILE_ID); ResultSet rs = stmt.getResultSet(); while (rs.next()) { fileId = rs.getLong(NEXTVAL); } PreparedStatement pstmt = conn.prepareStatement(INSERT_FILE); pstmt.setLong(1, fileId); pstmt.setLong(2, mimeType.getId()); pstmt.setLong(3, san.getId()); pstmt.setLong(4, WORKFLOW_ATTENTE_VALIDATION); int nbrow = pstmt.executeUpdate(); if (nbrow == 0) { throw new SQLException(); } conn.commit(); closeRessources(conn, pstmt); } catch (SQLException e) { log.error("Can't FileDAOImpl.create " + e.getMessage()); conn.rollback(); throw e; } FileBean fileBean = new FileBean(); return fileBean; } | 17,729 |
0 | private void parseXMLFile() { String u = WeatherApplication.SERVER + location + ".xml"; InputStream in = null; String str = null; try { URL url = new URL(u); HttpURLConnection con = (HttpURLConnection) url.openConnection(); in = url.openStream(); ParserToolXML prt = new ParserToolXML(in); if (prt.doc == null) { System.err.println(FILE_NOT_FOUND_MSG + u); return; } NodeList ndl = prt.doc.getElementsByTagName("weather"); for (int i = 0; i < ndl.getLength(); i++) { Forecast f = new Forecast(); str = prt.searchElementValue(ndl.item(i), "date"); f.setDate(str); str = prt.searchElementValue(ndl.item(i), "daycode"); f.setDaycode(Integer.parseInt(str.trim())); str = prt.searchElementValue(ndl.item(i), "nightcode"); f.setNightcode(Integer.parseInt(str.trim())); str = prt.searchElementValue(ndl.item(i), "maxtemp"); f.setDaytemp(Integer.parseInt(str.trim())); str = prt.searchElementValue(ndl.item(i), "mintemp"); f.setNighttemp(Integer.parseInt(str.trim())); str = prt.searchElementValue(ndl.item(i), "winddirectionday"); f.setDaywinddir(str); str = prt.searchElementValue(ndl.item(i), "windspeedday"); f.setDaywindspeed(Integer.parseInt(str.trim())); str = prt.searchElementValue(ndl.item(i), "winddirectionnight"); f.setNightwinddir(str); str = prt.searchElementValue(ndl.item(i), "windspeednight"); f.setNightwindspeed(Integer.parseInt(str.trim())); forecastlist.addElement(f); } } catch (MalformedURLException e) { System.err.println(MALFORMED_URL_MSG + u); System.err.println(e.getMessage()); e.printStackTrace(); } catch (IOException e) { } catch (NumberFormatException e) { System.err.println(FILE_CORRUPT_MSG + u); System.err.println("-" + str + "-"); System.err.println(e.getMessage()); e.printStackTrace(); } finally { if (in != null) { try { in.close(); } catch (IOException e) { System.err.println(COULD_NOT_CLOSE_FILE_MSG + u); e.printStackTrace(); } } } } | public void copyFile(File source, File destination) { try { FileInputStream sourceStream = new FileInputStream(source); try { FileOutputStream destinationStream = new FileOutputStream(destination); try { FileChannel sourceChannel = sourceStream.getChannel(); sourceChannel.transferTo(0, sourceChannel.size(), destinationStream.getChannel()); } finally { try { destinationStream.close(); } catch (Exception e) { throw new RuntimeIoException(e, IoMode.CLOSE); } } } finally { try { sourceStream.close(); } catch (Exception e) { throw new RuntimeIoException(e, IoMode.CLOSE); } } } catch (IOException e) { throw new RuntimeIoException(e, IoMode.COPY); } } | 17,730 |
1 | private String generateUniqueIdMD5(Run run, HttpServletRequest request, String groupIdString) { String portalUrl = request.getScheme() + "://" + request.getServerName() + ":" + request.getServerPort(); String uniqueportalUrl = portalUrl + "run:" + run.getId().toString() + "group:" + groupIdString; MessageDigest m = null; try { m = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { e.printStackTrace(); } m.update(uniqueportalUrl.getBytes(), 0, uniqueportalUrl.length()); String uniqueIdMD5 = new BigInteger(1, m.digest()).toString(16); return uniqueIdMD5; } | public static String encrypt(String unencryptedString) { if (StringUtils.isBlank(unencryptedString)) { throw new IllegalArgumentException("Cannot encrypt a null or empty string"); } MessageDigest md = null; String encryptionAlgorithm = Environment.getValue(Environment.PROP_ENCRYPTION_ALGORITHM); try { md = MessageDigest.getInstance(encryptionAlgorithm); } catch (NoSuchAlgorithmException e) { logger.warn("JDK does not support the " + encryptionAlgorithm + " encryption algorithm. Weaker encryption will be attempted."); } if (md == null) { try { md = MessageDigest.getInstance("SHA-1"); } catch (NoSuchAlgorithmException e) { throw new UnsupportedOperationException("JDK does not support the SHA-1 or SHA-512 encryption algorithms"); } Environment.setValue(Environment.PROP_ENCRYPTION_ALGORITHM, "SHA-1"); try { Environment.saveConfiguration(); } catch (WikiException e) { logger.info("Failure while saving encryption algorithm property", e); } } try { md.update(unencryptedString.getBytes("UTF-8")); byte raw[] = md.digest(); return encrypt64(raw); } catch (GeneralSecurityException e) { logger.error("Encryption failure", e); throw new IllegalStateException("Failure while encrypting value"); } catch (UnsupportedEncodingException e) { throw new IllegalStateException("Unsupporting encoding UTF-8"); } } | 17,731 |
0 | private void copyPhoto(final IPhoto photo, final Map.Entry<String, Integer> size) { final File fileIn = new File(storageService.getPhotoPath(photo, storageService.getOriginalDir())); final File fileOut = new File(storageService.getPhotoPath(photo, size.getKey())); InputStream fileInputStream; OutputStream fileOutputStream; try { fileInputStream = new FileInputStream(fileIn); fileOutputStream = new FileOutputStream(fileOut); IOUtils.copy(fileInputStream, fileOutputStream); fileInputStream.close(); fileOutputStream.close(); } catch (final IOException e) { log.error("file io exception", e); return; } } | public void run() { if (withlinlyn == true) { try { xlin.erase(file); } catch (Exception e) { System.out.println("Error erasing"); } } else if (as_php) { try { URL url = new URL(http + "REM:" + pservname); BufferedReader br = new BufferedReader(new InputStreamReader(url.openStream())); System.out.println("Response from REMOVE:"); String s; while ((s = br.readLine()) != null) { System.out.println(s); } br.close(); } catch (Exception e) { System.out.println("Error erasing/php!"); } } try { InetAddress ia = InetAddress.getLocalHost(); ss = new ServerSocket(0, 50, ia); startserv = System.currentTimeMillis(); ss.setSoTimeout(0); String svname = ia.getHostAddress(); System.out.println(svname + ":sv"); String mssg = "<SERVER><IP>" + svname + "</IP><PORT>" + ss.getLocalPort() + "</PORT></SERVER>"; if (withlinlyn == true) { try { xlin.replace(file, mssg); System.out.println("mssg:" + mssg + ", sent"); } catch (Exception e) { System.out.println("Error posting address"); return; } } else if (as_php) { try { URL url = new URL(http + "ADD:" + svname + ":" + ss.getLocalPort() + ":" + pservname); BufferedReader br = new BufferedReader(new InputStreamReader(url.openStream())); String response = ""; String s; while ((s = br.readLine()) != null) { response = response + s + System.getProperty("line.separator"); } br.close(); String resp = new xLineSplit().ssplit("REPLY", response); if (!resp.equalsIgnoreCase("ADDED")) { System.out.println("potential error posting via php:\nReponse was:\n" + response); } } catch (Exception e) { System.out.println("Error in posting php:" + e.toString()); } } xsl.regserver(svname, new String("" + ss.getLocalPort())); Socket server = null; listening = true; while (listening) { server = ss.accept(); if (server != null) { xsl.add(server); System.out.println("added connect"); } else { System.out.println("Received null socket"); } server = null; listening = control_listening; } finserv = System.currentTimeMillis(); long l = finserv - startserv; long m = l / 1000; System.err.println("Server socket has closed, time elapsed:" + m); System.out.println("Server socket has closed, time elapsed:" + m); } catch (Exception e) { System.out.println(e.toString()); } } | 17,732 |
0 | public static void parseString(String str, String name) { BufferedReader reader; String zeile = null; boolean firstL = true; int lambda; float intens; int l_b = 0; int l_e = 0; HashMap<Integer, Float> curve = new HashMap<Integer, Float>(); String[] temp; try { File f = File.createTempFile("tempFile", null); URL url = new URL(str); InputStream is = url.openStream(); FileOutputStream os = new FileOutputStream(f); byte[] buffer = new byte[0xFFFF]; for (int len; (len = is.read(buffer)) != -1; ) os.write(buffer, 0, len); is.close(); os.close(); reader = new BufferedReader(new FileReader(f)); zeile = reader.readLine(); lambda = 0; while (zeile != null) { if (!(zeile.length() > 0 && zeile.charAt(0) == '#')) { zeile = reader.readLine(); break; } zeile = reader.readLine(); } while (zeile != null) { if (zeile.length() > 0) { temp = zeile.split(" "); lambda = Integer.parseInt(temp[0]); intens = Float.parseFloat(temp[1]); if (firstL) { firstL = false; l_b = lambda; } curve.put(lambda, intens); } zeile = reader.readLine(); } l_e = lambda; } catch (IOException e) { System.err.println("Error2 :" + e); } try { String tempV; File file = new File("C:/spectralColors/" + name + ".sd"); FileWriter fw = new FileWriter(file); BufferedWriter bw = new BufferedWriter(fw); bw.write("# COLOR: " + name + " Auto generated File: 02/09/2009; From " + l_b + " to " + l_e); bw.newLine(); bw.write(l_b + ""); bw.newLine(); for (int i = l_b; i <= l_e; i++) { if (curve.containsKey(i)) { tempV = i + " " + curve.get(i); bw.write(tempV); bw.newLine(); } } bw.close(); } catch (IOException e) { e.printStackTrace(); } } | public Object run() { if (type == GET_THEME_DIR) { String sep = File.separator; String[] dirs = new String[] { userHome + sep + ".themes", System.getProperty("swing.metacitythemedir"), "/usr/share/themes", "/usr/gnome/share/themes", "/opt/gnome2/share/themes" }; URL themeDir = null; for (int i = 0; i < dirs.length; i++) { if (dirs[i] == null) { continue; } File dir = new File(dirs[i] + sep + arg + sep + "metacity-1"); if (new File(dir, "metacity-theme-1.xml").canRead()) { try { themeDir = dir.toURL(); } catch (MalformedURLException ex) { themeDir = null; } break; } } if (themeDir == null) { String filename = "resources/metacity/" + arg + "/metacity-1/metacity-theme-1.xml"; URL url = getClass().getResource(filename); if (url != null) { String str = url.toString(); try { themeDir = new URL(str.substring(0, str.lastIndexOf('/')) + "/"); } catch (MalformedURLException ex) { themeDir = null; } } } return themeDir; } else if (type == GET_USER_THEME) { try { userHome = System.getProperty("user.home"); String theme = System.getProperty("swing.metacitythemename"); if (theme != null) { return theme; } URL url = new URL(new File(userHome).toURL(), ".gconf/apps/metacity/general/%25gconf.xml"); Reader reader = new InputStreamReader(url.openStream(), "ISO-8859-1"); char[] buf = new char[1024]; StringBuffer strBuf = new StringBuffer(); int n; while ((n = reader.read(buf)) >= 0) { strBuf.append(buf, 0, n); } reader.close(); String str = strBuf.toString(); if (str != null) { String strLowerCase = str.toLowerCase(); int i = strLowerCase.indexOf("<entry name=\"theme\""); if (i >= 0) { i = strLowerCase.indexOf("<stringvalue>", i); if (i > 0) { i += "<stringvalue>".length(); int i2 = str.indexOf("<", i); return str.substring(i, i2); } } } } catch (MalformedURLException ex) { } catch (IOException ex) { } return null; } else if (type == GET_IMAGE) { return new ImageIcon((URL) arg).getImage(); } else { return null; } } | 17,733 |
0 | public static final boolean checkForUpdate(final String currentVersion, final String updateURL, boolean noLock) throws Exception { try { final String parentFDTConfDirName = System.getProperty("user.home") + File.separator + ".fdt"; final String fdtUpdateConfFileName = "update.properties"; final File confFile = createOrGetRWFile(parentFDTConfDirName, fdtUpdateConfFileName); if (confFile != null) { long lastCheck = 0; Properties updateProperties = new Properties(); FileInputStream fis = null; FileOutputStream fos = null; try { fis = new FileInputStream(confFile); updateProperties.load(fis); final String lastCheckProp = (String) updateProperties.get("LastCheck"); lastCheck = 0; if (lastCheckProp != null) { try { lastCheck = Long.parseLong(lastCheckProp); } catch (Throwable t) { if (logger.isLoggable(Level.FINE)) { logger.log(Level.FINE, "Got exception parsing LastCheck param", t); } lastCheck = 0; } } } catch (Throwable t) { logger.log(Level.WARNING, "Cannot load update properties file: " + confFile, t); } finally { closeIgnoringExceptions(fos); closeIgnoringExceptions(fis); } final long now = System.currentTimeMillis(); boolean bHaveUpdates = false; checkAndSetInstanceID(updateProperties); if (lastCheck + FDT.UPDATE_PERIOD < now) { lastCheck = now; try { logger.log("\n\nChecking for remote updates ... This may be disabled using -noupdates flag."); bHaveUpdates = updateFDT(currentVersion, updateURL, false, noLock); if (bHaveUpdates) { logger.log("FDT may be updated using: java -jar fdt.jar -update"); } else { if (logger.isLoggable(Level.FINE)) { logger.log(Level.FINE, "No updates available"); } } } catch (Throwable t) { if (logger.isLoggable(Level.FINE)) { logger.log(Level.WARNING, "Got exception", t); } } updateProperties.put("LastCheck", "" + now); try { fos = new FileOutputStream(confFile); updateProperties.store(fos, null); } catch (Throwable t1) { logger.log(Level.WARNING, "Cannot store update properties file", t1); } finally { closeIgnoringExceptions(fos); } return bHaveUpdates; } } else { if (logger.isLoggable(Level.FINE)) { logger.log(Level.FINE, " [ checkForUpdate ] Cannot read or write the update conf file: " + parentFDTConfDirName + File.separator + fdtUpdateConfFileName); } return false; } } catch (Throwable t) { logger.log(Level.WARNING, "Got exception checking for updates", t); } return false; } | public static void main(String[] argv) { MessageDigest md = null; try { md = MessageDigest.getInstance("SHA-1"); } catch (Exception e) { e.printStackTrace(); } md.update("abcdbcdecdefdefgefghfghighijhijkijkljklmklmnlmnomnopnopq".getBytes(), 0, 56); String exp = "84983E441C3BD26EBAAE4AA1F95129E5E54670F1"; String result = toString(md.digest()); System.out.println(exp); System.out.println(result); if (!exp.equals(result)) System.out.println("NOT EQUAL!"); } | 17,734 |
0 | public synchronized String encrypt(String password) { try { MessageDigest md = null; md = MessageDigest.getInstance("SHA-1"); md.update(password.getBytes("UTF-8")); byte raw[] = md.digest(); byte[] hash = (new Base64()).encode(raw); return new String(hash); } catch (NoSuchAlgorithmException e) { System.out.println("Algorithm SHA-1 is not supported"); return null; } catch (UnsupportedEncodingException e) { System.out.println("UTF-8 encoding is not supported"); return null; } } | public static Font createTrueTypeFont(URL url, int style, float size) { Font f = null; try { f = Font.createFont(Font.TRUETYPE_FONT, url.openStream()); } catch (IOException e) { System.err.println("ERROR: " + url + " is not found or can not be read"); f = new Font("Verdana", 0, 0); } catch (FontFormatException e) { System.err.println("ERROR: " + url + " is not a valid true type font"); f = new Font("Verdana", 0, 0); } return f.deriveFont(style, size); } | 17,735 |
0 | public Boolean compress(String sSourceDir, ArrayList<String> aFiles, String sDestinationFilename) { logger.debug("compress(%s, %s, %s)", sSourceDir, aFiles, sDestinationFilename); BufferedInputStream oOrigin = null; FileOutputStream oDestination; ZipOutputStream oOutput = null; Iterator<String> oIterator; byte[] aData; try { oDestination = new FileOutputStream(sDestinationFilename); oOutput = new ZipOutputStream(new BufferedOutputStream(oDestination)); aData = new byte[BUFFER_SIZE]; oIterator = aFiles.iterator(); while (oIterator.hasNext()) { try { String sFilename = (String) oIterator.next(); FileInputStream fisInput = new FileInputStream(sSourceDir + File.separator + sFilename); oOrigin = new BufferedInputStream(fisInput, BUFFER_SIZE); ZipEntry oEntry = new ZipEntry(sFilename.replace('\\', '/')); oOutput.putNextEntry(oEntry); int iCount; while ((iCount = oOrigin.read(aData, 0, BUFFER_SIZE)) != -1) oOutput.write(aData, 0, iCount); } finally { StreamHelper.close(oOrigin); } } } catch (Exception oException) { logger.error(oException.getMessage(), oException); return false; } finally { StreamHelper.close(oOutput); } return true; } | public SCFFile(URL url) throws IOException { URLConnection connection = url.openConnection(); byte[] content = new byte[connection.getContentLength()]; DataInputStream dis = new DataInputStream(connection.getInputStream()); dis.readFully(content); dis.close(); dis = new DataInputStream(new ByteArrayInputStream(content)); header = new SCFHeader(dis); if (!header.magicNumber.equals(".scf")) throw new RuntimeException(url + " is not an SCF file"); A = new int[header.samples]; C = new int[header.samples]; G = new int[header.samples]; T = new int[header.samples]; max = Integer.MIN_VALUE; dis.reset(); dis.skipBytes(header.samplesOffset); if (header.sampleSize == 1) { if (header.version < 3.00) { for (int i = 0; i < header.samples; ++i) { A[i] = dis.readUnsignedByte(); if (A[i] > max) max = A[i]; C[i] = dis.readUnsignedByte(); if (C[i] > max) max = C[i]; G[i] = dis.readUnsignedByte(); if (G[i] > max) max = G[i]; T[i] = dis.readUnsignedByte(); if (T[i] > max) max = T[i]; } } else { for (int i = 0; i < header.samples; ++i) { A[i] = dis.readUnsignedByte(); if (A[i] > max) max = A[i]; } for (int i = 0; i < header.samples; ++i) { C[i] = dis.readUnsignedByte(); if (C[i] > max) max = C[i]; } for (int i = 0; i < header.samples; ++i) { G[i] = dis.readUnsignedByte(); if (G[i] > max) max = G[i]; } for (int i = 0; i < header.samples; ++i) { T[i] = dis.readUnsignedByte(); if (T[i] > max) max = T[i]; } } } else if (header.sampleSize == 2) { if (header.version < 3.00) { for (int i = 0; i < header.samples; ++i) { A[i] = dis.readUnsignedShort(); if (A[i] > max) max = A[i]; C[i] = dis.readUnsignedShort(); if (C[i] > max) max = C[i]; G[i] = dis.readUnsignedShort(); if (G[i] > max) max = G[i]; T[i] = dis.readUnsignedShort(); if (T[i] > max) max = T[i]; } } else { for (int i = 0; i < header.samples; ++i) { A[i] = dis.readUnsignedShort(); if (A[i] > max) max = A[i]; } for (int i = 0; i < header.samples; ++i) { C[i] = dis.readUnsignedShort(); if (C[i] > max) max = C[i]; } for (int i = 0; i < header.samples; ++i) { G[i] = dis.readUnsignedShort(); if (G[i] > max) max = G[i]; } for (int i = 0; i < header.samples; ++i) { T[i] = dis.readUnsignedShort(); if (T[i] > max) max = T[i]; } } } centers = new int[header.bases]; byte[] buf = new byte[header.bases]; dis.reset(); dis.skipBytes(header.basesOffset); if (header.version < 3.00) { for (int i = 0; i < header.bases; ++i) { centers[i] = dis.readInt(); dis.skipBytes(4); buf[i] = dis.readByte(); dis.skipBytes(3); } } else { for (int i = 0; i < header.bases; ++i) centers[i] = dis.readInt(); dis.skipBytes(4 * header.bases); dis.readFully(buf); } sequence = new String(buf); dis.close(); } | 17,736 |
1 | @Override public void setContentAsStream(InputStream input) throws IOException { BufferedOutputStream output = new BufferedOutputStream(new FileOutputStream(htmlFile)); try { IOUtils.copy(input, output); } finally { output.close(); } if (this.getLastModified() != -1) { htmlFile.setLastModified(this.getLastModified()); } } | public final void copyFile(final File fromFile, final File toFile) throws IOException { this.createParentPathIfNeeded(toFile); final FileChannel sourceChannel = new FileInputStream(fromFile).getChannel(); final FileChannel targetChannel = new FileOutputStream(toFile).getChannel(); final long sourceFileSize = sourceChannel.size(); sourceChannel.transferTo(0, sourceFileSize, targetChannel); } | 17,737 |
0 | static List<String> readZipFilesOftypeToFolder(String zipFileLocation, String outputDir, String fileType) { List<String> list = new ArrayList<String>(); ZipFile zipFile = readZipFile(zipFileLocation); FileOutputStream output = null; InputStream inputStream = null; Enumeration<ZipEntry> entries = (Enumeration<ZipEntry>) zipFile.entries(); try { while (entries.hasMoreElements()) { java.util.zip.ZipEntry entry = entries.nextElement(); String entryName = entry.getName(); if (entryName != null && entryName.toLowerCase().endsWith(fileType)) { inputStream = zipFile.getInputStream(entry); String fileName = outputDir + entryName.substring(entryName.lastIndexOf("/")); File file = new File(fileName); output = new FileOutputStream(file); IOUtils.copy(inputStream, output); list.add(fileName); } } } catch (Exception e) { throw new RuntimeException(e); } finally { try { if (output != null) output.close(); if (inputStream != null) inputStream.close(); if (zipFile != null) zipFile.close(); } catch (IOException e) { throw new RuntimeException(e); } } return list; } | private ArrayList<Stock> fetchStockData(Stock[] stocks) throws IOException { Log.d(TAG, "Fetching stock data from Yahoo"); ArrayList<Stock> newStocks = new ArrayList<Stock>(stocks.length); if (stocks.length > 0) { StringBuilder sb = new StringBuilder(); for (Stock stock : stocks) { sb.append(stock.getSymbol()); sb.append('+'); } sb.deleteCharAt(sb.length() - 1); String urlStr = "http://finance.yahoo.com/d/quotes.csv?f=sb2n&s=" + sb.toString(); HttpClient client = new DefaultHttpClient(); HttpGet request = new HttpGet(urlStr.toString()); HttpResponse response = client.execute(request); BufferedReader reader = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); String line = reader.readLine(); int i = 0; Log.d(TAG, "Parsing stock data from Yahoo"); while (line != null) { Log.d(TAG, "Parsing: " + line); String[] values = line.split(","); Stock stock = new Stock(stocks[i], stocks[i].getId()); stock.setCurrentPrice(Double.parseDouble(values[1])); stock.setName(values[2]); Log.d(TAG, "Parsed Stock: " + stock); newStocks.add(stock); line = reader.readLine(); i++; } } return newStocks; } | 17,738 |
0 | public TreeNode fetchArchive(TreeNode owner, int id) throws Exception { builder.start(owner, false); parser.setDocumentHandler(builder); String arg = server + "?todo=archive&db=" + db + "&document=" + document + "&id=" + id; URL url = new URL(arg); URLConnection con = url.openConnection(); con.setUseCaches(false); con.connect(); InputSource xmlInput = new InputSource(new InputStreamReader(con.getInputStream(), "ISO-8859-1")); parser.parse(xmlInput); return owner; } | public static String hashString(String sPassword) { if (sPassword == null || sPassword.equals("")) { return "empty:"; } else { try { MessageDigest md = MessageDigest.getInstance("SHA-1"); md.update(sPassword.getBytes("UTF-8")); byte[] res = md.digest(); return "sha1:" + byte2hex(res); } catch (NoSuchAlgorithmException e) { return "plain:" + sPassword; } catch (UnsupportedEncodingException e) { return "plain:" + sPassword; } } } | 17,739 |
0 | public static void main(String[] args) throws Exception { String layerName = args[0]; String layerDescription = args[1]; String units = args[2]; String rawDataDirPath = args[3]; String processDirPath = args[4]; String divaDirPath = args[5]; String legendDirPath = args[6]; String geotiffDirPath = args[7]; String dbJdbcUrl = args[8]; String dbUsername = args[9]; String dbPassword = args[10]; String geoserverUsername = args[11]; String geoserverPassword = args[12]; File rawDataDir = new File(rawDataDirPath); if (!rawDataDir.exists() || !rawDataDir.isDirectory()) { throw new RuntimeException("Supplied raw data directory " + rawDataDirPath + " does not exist or is not a directory"); } File processDir = new File(processDirPath); if (!processDir.exists() || !processDir.isDirectory()) { throw new RuntimeException("Supplied process directory " + processDirPath + " does not exist or is not a directory"); } File divaDir = new File(divaDirPath); if (!divaDir.exists() || !divaDir.isDirectory()) { throw new RuntimeException("Supplied diva directory " + divaDirPath + " does not exist or is not a directory"); } File legendDir = new File(legendDirPath); if (!legendDir.exists() || !legendDir.isDirectory()) { throw new RuntimeException("Supplied legend directory " + legendDirPath + " does not exist or is not a directory"); } File geotiffDir = new File(geotiffDirPath); if (!geotiffDir.exists() || !geotiffDir.isDirectory()) { throw new RuntimeException("Supplied geotiff directory " + geotiffDirPath + " does not exist or is not a directory"); } System.out.println("Beginning environmetal load"); System.out.println("Connecting to database"); Class.forName("org.postgresql.Driver"); Properties props = new Properties(); props.setProperty("user", dbUsername); props.setProperty("password", dbPassword); Connection conn = DriverManager.getConnection(dbJdbcUrl, props); conn.setAutoCommit(false); try { File layerProcessDir = new File(processDir, layerName); layerProcessDir.mkdir(); System.out.println("Running gdalwarp"); File hdrFile = new File(rawDataDir, "hdr.adf"); if (!hdrFile.exists()) { throw new RuntimeException("Could not find hdr.adf in " + rawDataDirPath); } File bilFile = new File(layerProcessDir, layerName + ".bil"); Process procGdalWarp = Runtime.getRuntime().exec(new String[] { "gdalwarp", "-of", "EHdr", "-ot", "Float32", hdrFile.getAbsolutePath(), bilFile.getAbsolutePath() }); int gdalWarpReturnVal = procGdalWarp.waitFor(); if (gdalWarpReturnVal != 0) { String gdalWarpErrorOutput = IOUtils.toString(procGdalWarp.getErrorStream()); throw new RuntimeException("gdalwarp failed: " + gdalWarpErrorOutput); } System.out.println("Running Bil2diva"); boolean bil2DivaSuccess = Bil2diva.bil2diva(layerProcessDir.getAbsolutePath() + File.separator + layerName, divaDir.getAbsolutePath() + File.separator + layerName, units); if (!bil2DivaSuccess) { throw new RuntimeException("Bil2diva Failed"); } System.out.println("Running GridLegend"); boolean gridLegendSuccess = GridLegend.generateGridLegend(divaDir.getAbsolutePath() + File.separator + layerName, legendDir.getAbsolutePath() + File.separator + layerName, 1, false); if (!gridLegendSuccess) { throw new RuntimeException("GridLegend Failed"); } System.out.println("Running gdal_translate"); File geotiffFile = new File(geotiffDir, layerName + ".tif"); Process procGdalTranslate = Runtime.getRuntime().exec(new String[] { "gdal_translate", "-of", "GTiff", bilFile.getAbsolutePath(), geotiffFile.getAbsolutePath() }); int gdalTranslateReturnVal = procGdalTranslate.waitFor(); if (gdalTranslateReturnVal != 0) { String gdalTranslateErrorOutput = IOUtils.toString(procGdalTranslate.getErrorStream()); throw new RuntimeException("gdal_translate failed: " + gdalTranslateErrorOutput); } System.out.println("Extracting extents and min/max environmental value from diva .grd file"); File divaGrd = new File(divaDir, layerName + ".grd"); if (!divaGrd.exists()) { throw new RuntimeException("Could not locate diva .grd file: " + divaGrd.toString()); } String strDivaGrd = FileUtils.readFileToString(divaGrd); float minValue = Float.parseFloat(matchPattern(strDivaGrd, "^MinValue=(.+)$")); float maxValue = Float.parseFloat(matchPattern(strDivaGrd, "^MaxValue=(.+)$")); float minLatitude = Float.parseFloat(matchPattern(strDivaGrd, "^MinY=(.+)$")); float maxLatitude = Float.parseFloat(matchPattern(strDivaGrd, "^MaxY=(.+)$")); float minLongitude = Float.parseFloat(matchPattern(strDivaGrd, "^MinX=(.+)$")); float maxLongitude = Float.parseFloat(matchPattern(strDivaGrd, "^MaxX=(.+)$")); System.out.println("Generating ID for new layer..."); Statement st = conn.createStatement(); ResultSet rs = st.executeQuery("SELECT MAX(id) from layers"); rs.next(); int id = 1; String idAsString = rs.getString(1); if (idAsString != null) { id = Integer.parseInt(idAsString); id++; } String displayPath = MessageFormat.format(GEOSERVER_QUERY_TEMPLATE, layerName); System.out.println("Creating layers table entry..."); PreparedStatement createLayersStatement = createLayersInsert(conn, id, layerDescription, divaDir.getAbsolutePath(), layerName, displayPath, minLatitude, minLongitude, maxLatitude, maxLongitude, minValue, maxValue, units); createLayersStatement.execute(); System.out.println("Creating fields table entry..."); PreparedStatement createFieldsStatement = createFieldsInsert(conn, id, layerName, layerDescription); createFieldsStatement.execute(); DefaultHttpClient httpClient = new DefaultHttpClient(); httpClient.getCredentialsProvider().setCredentials(new AuthScope("localhost", 8082), new UsernamePasswordCredentials(geoserverUsername, geoserverPassword)); System.out.println("Creating layer in geoserver..."); HttpPut createLayerPut = new HttpPut(String.format("http://localhost:8082/geoserver/rest/workspaces/ALA/coveragestores/%s/external.geotiff", layerName)); createLayerPut.setHeader("Content-type", "text/plain"); createLayerPut.setEntity(new StringEntity(geotiffFile.toURI().toURL().toString())); HttpResponse createLayerResponse = httpClient.execute(createLayerPut); if (createLayerResponse.getStatusLine().getStatusCode() != 200) { throw new RuntimeException("Error creating layer in geoserver: " + createLayerResponse.toString()); } EntityUtils.consume(createLayerResponse.getEntity()); System.out.println("Creating style in geoserver"); HttpPost createStylePost = new HttpPost("http://localhost:8082/geoserver/rest/styles"); createStylePost.setHeader("Content-type", "text/xml"); createStylePost.setEntity(new StringEntity(String.format("<style><name>%s_style</name><filename>%s.sld</filename></style>", layerName, layerName))); HttpResponse createStyleResponse = httpClient.execute(createLayerPut); if (createStyleResponse.getStatusLine().getStatusCode() != 201) { throw new RuntimeException("Error creating style in geoserver: " + createStyleResponse.toString()); } EntityUtils.consume(createStyleResponse.getEntity()); System.out.println("Uploading sld file to geoserver"); File sldFile = new File(legendDir, layerName + ".sld"); String sldData = FileUtils.readFileToString(sldFile); HttpPut uploadSldPut = new HttpPut(String.format("http://localhost:8082/geoserver/rest/styles/%s_style", layerName)); uploadSldPut.setHeader("Content-type", "application/vnd.ogc.sld+xml"); uploadSldPut.setEntity(new StringEntity(sldData)); HttpResponse uploadSldResponse = httpClient.execute(uploadSldPut); if (uploadSldResponse.getStatusLine().getStatusCode() != 200) { throw new RuntimeException("Error uploading sld file geoserver: " + uploadSldResponse.toString()); } EntityUtils.consume(uploadSldResponse.getEntity()); System.out.println("Setting default style in geoserver"); HttpPut setDefaultStylePut = new HttpPut(String.format("http://localhost:8082/geoserver/rest/layers/ALA:%s", layerName)); setDefaultStylePut.setHeader("Content-type", "text/xml"); setDefaultStylePut.setEntity(new StringEntity(String.format("<layer><enabled>true</enabled><defaultStyle><name>%s_style</name></defaultStyle></layer>", layerName))); HttpResponse setDefaultStyleResponse = httpClient.execute(createLayerPut); if (setDefaultStyleResponse.getStatusLine().getStatusCode() != 200) { throw new RuntimeException("Setting default style in geoserver: " + setDefaultStyleResponse.toString()); } EntityUtils.consume(setDefaultStyleResponse.getEntity()); conn.commit(); } catch (Exception ex) { ex.printStackTrace(); conn.rollback(); } } | public Document load(java.net.URL url) throws DOMTestLoadException { Document doc = null; Exception parseException = null; try { LoadErrorHandler errorHandler = new LoadErrorHandler(); builder.setErrorHandler(errorHandler); doc = builder.parse(url.openStream(), url.toString()); parseException = errorHandler.getFirstException(); } catch (Exception ex) { parseException = ex; } builder.setErrorHandler(null); if (parseException != null) { throw new DOMTestLoadException(parseException); } return doc; } | 17,740 |
1 | public ZIPSignatureService(InputStream documentInputStream, SignatureFacet signatureFacet, OutputStream documentOutputStream, RevocationDataService revocationDataService, TimeStampService timeStampService, String role, IdentityDTO identity, byte[] photo, DigestAlgo signatureDigestAlgo) throws IOException { super(signatureDigestAlgo); this.temporaryDataStorage = new HttpSessionTemporaryDataStorage(); this.documentOutputStream = documentOutputStream; this.tmpFile = File.createTempFile("eid-dss-", ".zip"); FileOutputStream fileOutputStream; fileOutputStream = new FileOutputStream(this.tmpFile); IOUtils.copy(documentInputStream, fileOutputStream); addSignatureFacet(new ZIPSignatureFacet(this.tmpFile, signatureDigestAlgo)); XAdESSignatureFacet xadesSignatureFacet = new XAdESSignatureFacet(getSignatureDigestAlgorithm()); xadesSignatureFacet.setRole(role); addSignatureFacet(xadesSignatureFacet); addSignatureFacet(new KeyInfoSignatureFacet(true, false, false)); addSignatureFacet(new XAdESXLSignatureFacet(timeStampService, revocationDataService, getSignatureDigestAlgorithm())); addSignatureFacet(signatureFacet); if (null != identity) { IdentitySignatureFacet identitySignatureFacet = new IdentitySignatureFacet(identity, photo, getSignatureDigestAlgorithm()); addSignatureFacet(identitySignatureFacet); } } | public static void copy(Context cx, Scriptable thisObj, Object[] args, Function funObj) throws IOException { InputStream input = (InputStream) ((NativeJavaObject) args[0]).unwrap(); OutputStream output = (OutputStream) ((NativeJavaObject) args[1]).unwrap(); IOUtils.copy(input, output); } | 17,741 |
1 | public ReqJsonContent(String useragent, String urlstr, String domain, String pathinfo, String alarmMessage) throws IOException { URL url = new URL(urlstr); URLConnection conn = url.openConnection(); conn.setRequestProperty("user-agent", useragent); conn.setRequestProperty("pathinfo", pathinfo); conn.setRequestProperty("domain", domain); try { BufferedReader reader = new BufferedReader(new InputStreamReader(conn.getInputStream(), "UTF8")); response = new StringBuffer(); String line = ""; while ((line = reader.readLine()) != null) { response.append(line); } reader.close(); jsonContectResult = response.toString(); } catch (SocketTimeoutException e) { log.severe(alarmMessage + "-> " + e.getMessage()); jsonContectResult = null; } catch (Exception e) { log.severe(alarmMessage + "-> " + e.getMessage()); jsonContectResult = null; } } | @Override public void doHandler(HttpServletRequest request, HttpServletResponse response) throws IOException, ServletException { if (request.getRequestURI().indexOf(".swf") != -1) { String fullUrl = (String) request.getAttribute("fullUrl"); fullUrl = urlTools.urlFilter(fullUrl, true); response.setCharacterEncoding("gbk"); response.setContentType("application/x-shockwave-flash"); PrintWriter out = response.getWriter(); try { URL url = new URL(fullUrl); BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream(), "gbk")); fileEditor.pushStream(out, in, null, true); } catch (Exception e) { } out.flush(); } else if (request.getRequestURI().indexOf(".xml") != -1) { response.setContentType("text/xml"); PrintWriter out = response.getWriter(); try { URL url = new URL("http://" + configCenter.getUcoolOnlineIp() + request.getRequestURI()); BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); fileEditor.pushStream(out, in, null, true); } catch (Exception e) { } out.flush(); } } | 17,742 |
0 | private String fetchHTML(String s) { String str; StringBuffer sb = new StringBuffer(); try { URL url = new URL(s); InputStream is = url.openStream(); InputStreamReader isr = new InputStreamReader(is); BufferedReader br = new BufferedReader(isr); while ((str = br.readLine()) != null) { sb.append(str); } } catch (MalformedURLException e) { } catch (IOException e) { } return sb.toString(); } | private void harvest() throws IOException, XMLStreamException { String api_url = "http://search.twitter.com/search.atom?q=+%23" + hashtag + "+to%3A" + account; System.err.println(api_url); URL url = new URL(api_url); URLConnection con = url.openConnection(); String basic = this.login + ":" + new String(this.password); con.setRequestProperty("Authorization", "Basic " + Base64.encode(basic)); XMLInputFactory factory = XMLInputFactory.newInstance(); factory.setProperty(XMLInputFactory.IS_NAMESPACE_AWARE, true); factory.setProperty(XMLInputFactory.IS_VALIDATING, false); factory.setProperty(XMLInputFactory.IS_SUPPORTING_EXTERNAL_ENTITIES, false); XMLEventReader reader = factory.createXMLEventReader(con.getInputStream()); boolean inEntry = false; boolean inAuthor = false; String published = null; String title = null; String foafName = null; String foafURI = null; String link = null; while (reader.hasNext()) { XMLEvent evt = reader.nextEvent(); if (evt.isStartElement()) { StartElement e = evt.asStartElement(); QName qName = e.getName(); if (!inEntry && Atom.NS.equals(qName.getNamespaceURI()) && qName.getLocalPart().equals("entry")) { inEntry = true; } else if (inEntry) { String local = qName.getLocalPart(); if (local.equals("published")) { published = reader.getElementText(); } else if (local.equals("title")) { title = reader.getElementText(); } else if (link == null && local.equals("link")) { Attribute att = e.getAttributeByName(new QName("type")); if (att != null && att.getValue().equals("text/html")) { att = e.getAttributeByName(new QName("href")); if (att != null) { link = att.getValue(); } } } else if (local.equals("author")) { inAuthor = true; } else if (inAuthor && local.equals("name")) { foafName = reader.getElementText(); } else if (inAuthor && local.equals("uri")) { foafURI = reader.getElementText(); } } } else if (evt.isEndElement()) { EndElement e = evt.asEndElement(); QName qName = e.getName(); if (inEntry && Atom.NS.equals(qName.getNamespaceURI())) { String local = qName.getLocalPart(); if (local.equals("entry")) { Protein p1 = null; Protein p2 = null; PubmedEntry pubmed = null; boolean valid = title != null && published != null; String tokens[] = title == null ? new String[0] : title.trim().split("[ \t\n\r]+"); if (valid && tokens.length != 5) { System.err.println("Ignoring " + title); valid = false; } if (valid && !tokens[0].equals("@" + account)) { System.err.println("Ignoring " + title + " doesn't start with @" + account); valid = false; } if (valid && !(tokens[1].startsWith("gi:") && Cast.Integer.isA(tokens[1].substring(3)))) { System.err.println("Ignoring " + title + " not a gi:###"); valid = false; } if (valid && (p1 = fetchProtein(Integer.parseInt(tokens[1].substring(3)))) == null) { valid = false; } if (valid && !(tokens[2].startsWith("gi:") && Cast.Integer.isA(tokens[2].substring(3)))) { System.err.println("Ignoring " + title + " not a gi:###"); valid = false; } if (valid && (p2 = fetchProtein(Integer.parseInt(tokens[2].substring(3)))) == null) { valid = false; } if (valid && !(tokens[3].startsWith("pmid:") && Cast.Integer.isA(tokens[3].substring(5)))) { System.err.println("Ignoring " + title + " not a pmid:###"); valid = false; } if (valid && (pubmed = fetchPubmedEntry(Integer.parseInt(tokens[3].substring(5)))) == null) { valid = false; } if (valid && !tokens[4].equals("#" + hashtag)) { System.err.println("Ignoring " + title + " doesn't end with #" + hashtag); valid = false; } if (valid && p1 != null && p2 != null && pubmed != null && foafName != null && foafURI != null) { exportFoaf(foafName, foafURI); exportGi(p1); exportGi(p2); exportPubmed(pubmed); System.out.println("<Interaction rdf:about=\"" + link + "\">"); System.out.println(" <interactor rdf:resource=\"lsid:ncbi.nlm.nih.gov:protein:" + p1.gi + "\"/>"); System.out.println(" <interactor rdf:resource=\"lsid:ncbi.nlm.nih.gov:protein:" + p2.gi + "\"/>"); System.out.println(" <reference rdf:resource=\"http://www.ncbi.nlm.nih.gov/pubmed/" + pubmed.pmid + "\"/>"); System.out.println(" <dc:creator rdf:resource=\"" + foafURI + "\"/>"); System.out.println(" <dc:date>" + escape(published) + "</dc:date>"); System.out.println("</Interaction>"); } inEntry = false; title = null; foafName = null; foafURI = null; inAuthor = false; published = null; link = null; } else if (inAuthor && local.equals("author")) { inAuthor = false; } } } } reader.close(); } | 17,743 |
1 | private static void addFileToZip(String path, String srcFile, ZipOutputStream zip, String prefix, String suffix) throws Exception { File folder = new File(srcFile); if (folder.isDirectory()) { addFolderToZip(path, srcFile, zip, prefix, suffix); } else { if (isFileNameMatch(folder.getName(), prefix, suffix)) { FileInputStream fis = new FileInputStream(srcFile); zip.putNextEntry(new ZipEntry(path + "/" + folder.getName())); IOUtils.copy(fis, zip); fis.close(); } } } | public void covertFile(File file) throws IOException { if (!file.isFile()) { return; } Reader reader = null; OutputStream os = null; File newfile = null; String filename = file.getName(); boolean succeed = false; try { newfile = new File(file.getParentFile(), filename + ".bak"); reader = new InputStreamReader(new FileInputStream(file), fromEncoding); os = new FileOutputStream(newfile); IOUtils.copy(reader, os, toEncoding); } catch (Exception e) { e.printStackTrace(); throw new IOException("Encoding error for file [" + file.getAbsolutePath() + "]"); } finally { if (reader != null) { try { reader.close(); } catch (Exception e) { e.printStackTrace(); } } if (os != null) { try { os.close(); } catch (Exception e) { e.printStackTrace(); } } } try { file.delete(); succeed = newfile.renameTo(file); } catch (Exception e) { throw new IOException("Clear bak error for file [" + file.getAbsolutePath() + "]"); } if (succeed) { System.out.println("Changed encoding for file [" + file.getAbsolutePath() + "]"); } } | 17,744 |
1 | @Override protected void doFetch(HttpServletRequest request, HttpServletResponse response) throws IOException, GadgetException { if (request.getHeader("If-Modified-Since") != null) { response.setStatus(HttpServletResponse.SC_NOT_MODIFIED); return; } String host = request.getHeader("Host"); if (!lockedDomainService.isSafeForOpenProxy(host)) { String msg = "Embed request for url " + getParameter(request, URL_PARAM, "") + " made to wrong domain " + host; logger.info(msg); throw new GadgetException(GadgetException.Code.INVALID_PARAMETER, msg); } HttpRequest rcr = buildHttpRequest(request, URL_PARAM); HttpResponse results = requestPipeline.execute(rcr); if (results.isError()) { HttpRequest fallbackRcr = buildHttpRequest(request, FALLBACK_URL_PARAM); if (fallbackRcr != null) { results = requestPipeline.execute(fallbackRcr); } } if (contentRewriterRegistry != null) { try { results = contentRewriterRegistry.rewriteHttpResponse(rcr, results); } catch (RewritingException e) { throw new GadgetException(GadgetException.Code.INTERNAL_SERVER_ERROR, e); } } for (Map.Entry<String, String> entry : results.getHeaders().entries()) { String name = entry.getKey(); if (!DISALLOWED_RESPONSE_HEADERS.contains(name.toLowerCase())) { response.addHeader(name, entry.getValue()); } } String responseType = results.getHeader("Content-Type"); if (!StringUtils.isEmpty(rcr.getRewriteMimeType())) { String requiredType = rcr.getRewriteMimeType(); if (requiredType.endsWith("/*") && !StringUtils.isEmpty(responseType)) { requiredType = requiredType.substring(0, requiredType.length() - 2); if (!responseType.toLowerCase().startsWith(requiredType.toLowerCase())) { response.setContentType(requiredType); responseType = requiredType; } } else { response.setContentType(requiredType); responseType = requiredType; } } setResponseHeaders(request, response, results); if (results.getHttpStatusCode() != HttpResponse.SC_OK) { response.sendError(results.getHttpStatusCode()); } IOUtils.copy(results.getResponse(), response.getOutputStream()); } | private void writeFile(FileInputStream inFile, FileOutputStream outFile) throws IOException { byte[] buf = new byte[2048]; int read; while ((read = inFile.read(buf)) > 0) outFile.write(buf, 0, read); inFile.close(); } | 17,745 |
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; } | public static void copy_file(String fromFileName, String toFileName) throws IOException { File fromFile = new File(fromFileName); File toFile = new File(toFileName); if (!fromFile.exists()) throw new IOException("FileCopy: " + "no such source file: " + fromFileName); if (!fromFile.isFile()) throw new IOException("FileCopy: " + "can't copy directory: " + fromFileName); if (!fromFile.canRead()) throw new IOException("FileCopy: " + "source file is unreadable: " + fromFileName); if (toFile.isDirectory()) toFile = new File(toFile, fromFile.getName()); if (toFile.exists()) { if (!toFile.canWrite()) throw new IOException("FileCopy: " + "destination file is unwriteable: " + toFileName); System.out.print("Overwrite existing file " + toFile.getName() + "? (Y/N): "); System.out.flush(); BufferedReader in = new BufferedReader(new InputStreamReader(System.in)); String response = in.readLine(); if (!response.equals("Y") && !response.equals("y")) throw new IOException("FileCopy: " + "existing file was not overwritten."); } else { String parent = toFile.getParent(); if (parent == null) parent = System.getProperty("user.dir"); File dir = new File(parent); if (!dir.exists()) throw new IOException("FileCopy: " + "destination directory doesn't exist: " + parent); if (dir.isFile()) throw new IOException("FileCopy: " + "destination is not a directory: " + parent); if (!dir.canWrite()) throw new IOException("FileCopy: " + "destination directory is unwriteable: " + parent); } FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(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) { ; } } } | 17,746 |
1 | private void addAllSpecialPages(Environment env, ZipOutputStream zipout, int progressStart, int progressLength) throws Exception, IOException { ResourceBundle messages = ResourceBundle.getBundle("ApplicationResources", locale); String tpl; int count = 0; int numberOfSpecialPages = 7; progress = Math.min(progressStart + (int) ((double) count * (double) progressLength / numberOfSpecialPages), 99); count++; String cssContent = wb.readRaw(virtualWiki, "StyleSheet"); addZipEntry(zipout, "css/vqwiki.css", cssContent); progress = Math.min(progressStart + (int) ((double) count * (double) progressLength / numberOfSpecialPages), 99); count++; tpl = getTemplateFilledWithContent("search"); addTopicEntry(zipout, tpl, "WikiSearch", "WikiSearch.html"); progress = Math.min(progressStart + (int) ((double) count * (double) progressLength / numberOfSpecialPages), 99); count++; zipout.putNextEntry(new ZipEntry("applets/export2html-applet.jar")); IOUtils.copy(new FileInputStream(ctx.getRealPath("/WEB-INF/classes/export2html/export2html-applet.jar")), zipout); zipout.closeEntry(); zipout.flush(); try { ByteArrayOutputStream bos = new ByteArrayOutputStream(); JarOutputStream indexjar = new JarOutputStream(bos); JarEntry jarEntry; File searchDir = new File(wb.getSearchEngine().getSearchIndexPath(virtualWiki)); String files[] = searchDir.list(); StringBuffer listOfAllFiles = new StringBuffer(); for (int i = 0; i < files.length; i++) { if (listOfAllFiles.length() > 0) { listOfAllFiles.append(","); } listOfAllFiles.append(files[i]); jarEntry = new JarEntry("lucene/index/" + files[i]); indexjar.putNextEntry(jarEntry); IOUtils.copy(new FileInputStream(new File(searchDir, files[i])), indexjar); indexjar.closeEntry(); } indexjar.flush(); indexjar.putNextEntry(new JarEntry("lucene/index.dir")); IOUtils.copy(new StringReader(listOfAllFiles.toString()), indexjar); indexjar.closeEntry(); indexjar.flush(); indexjar.close(); zipout.putNextEntry(new ZipEntry("applets/index.jar")); zipout.write(bos.toByteArray()); zipout.closeEntry(); zipout.flush(); bos.reset(); } catch (Exception e) { logger.log(Level.FINE, "Exception while adding lucene index: ", e); } progress = Math.min(progressStart + (int) ((double) count * (double) progressLength / numberOfSpecialPages), 99); count++; StringBuffer content = new StringBuffer(); content.append("<table><tr><th>" + messages.getString("common.date") + "</th><th>" + messages.getString("common.topic") + "</th><th>" + messages.getString("common.user") + "</th></tr>" + IOUtils.LINE_SEPARATOR); Collection all = null; try { Calendar cal = Calendar.getInstance(); ChangeLog cl = wb.getChangeLog(); int n = env.getIntSetting(Environment.PROPERTY_RECENT_CHANGES_DAYS); if (n == 0) { n = 5; } all = new ArrayList(); for (int i = 0; i < n; i++) { Collection col = cl.getChanges(virtualWiki, cal.getTime()); if (col != null) { all.addAll(col); } cal.add(Calendar.DATE, -1); } } catch (Exception e) { } DateFormat df = DateFormat.getDateTimeInstance(DateFormat.SHORT, DateFormat.SHORT, locale); for (Iterator iter = all.iterator(); iter.hasNext(); ) { Change change = (Change) iter.next(); content.append("<tr><td class=\"recent\">" + df.format(change.getTime()) + "</td><td class=\"recent\"><a href=\"" + safename(change.getTopic()) + ".html\">" + change.getTopic() + "</a></td><td class=\"recent\">" + change.getUser() + "</td></tr>"); } content.append("</table>" + IOUtils.LINE_SEPARATOR); tpl = getTemplateFilledWithContent(null); tpl = tpl.replaceAll("@@CONTENTS@@", content.toString()); addTopicEntry(zipout, tpl, "RecentChanges", "RecentChanges.html"); logger.fine("Done adding all special topics."); } | private static String fetchFile(String urlLocation) { try { URL url = new URL(urlLocation); URLConnection conn = url.openConnection(); File tempFile = File.createTempFile("marla", ".jar"); OutputStream os = new FileOutputStream(tempFile); IOUtils.copy(conn.getInputStream(), os); return tempFile.getAbsolutePath(); } catch (IOException ex) { throw new MarlaException("Unable to fetch file '" + urlLocation + "' from server", ex); } } | 17,747 |
0 | public static String ReadURLString(String str) throws IOException { try { URL url = new URL(str); InputStream is = url.openStream(); InputStreamReader isr = new InputStreamReader(is); BufferedReader in = new BufferedReader(isr); String inputLine; String line = ""; int i = 0; while ((inputLine = in.readLine()) != null) { line += inputLine + "\n"; } is.close(); isr.close(); in.close(); return line; } catch (Exception e) { e.printStackTrace(); } return ""; } | 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 ""; } | 17,748 |
0 | private void addConfigurationResource(final String fileName, final boolean ensureLoaded) { try { final ClassLoader cl = this.getClass().getClassLoader(); final Properties p = new Properties(); final URL url = cl.getResource(fileName); if (url == null) { throw new NakedObjectRuntimeException("Failed to load configuration resource: " + fileName); } p.load(url.openStream()); configuration.add(p); } catch (Exception e) { if (ensureLoaded) { throw new NakedObjectRuntimeException(e); } LOG.debug("Resource: " + fileName + " not found, but not needed"); } } | public static void copyFile(final File source, final 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(); } } } | 17,749 |
1 | @Override public CasAssembly build() { try { prepareForBuild(); File casWorkingDirectory = casFile.getParentFile(); DefaultCasFileReadIndexToContigLookup read2contigMap = new DefaultCasFileReadIndexToContigLookup(); AbstractDefaultCasFileLookup readIdLookup = new DefaultReadCasFileLookup(casWorkingDirectory); CasParser.parseOnlyMetaData(casFile, MultipleWrapper.createMultipleWrapper(CasFileVisitor.class, read2contigMap, readIdLookup)); ReadWriteDirectoryFileServer consedOut = DirectoryFileServer.createReadWriteDirectoryFileServer(commandLine.getOptionValue("o")); long startTime = DateTimeUtils.currentTimeMillis(); int numberOfCasContigs = read2contigMap.getNumberOfContigs(); for (long i = 0; i < numberOfCasContigs; i++) { File outputDir = consedOut.createNewDir("" + i); Command aCommand = new Command(new File("fakeCommand")); aCommand.setOption("-casId", "" + i); aCommand.setOption("-cas", commandLine.getOptionValue("cas")); aCommand.setOption("-o", outputDir.getAbsolutePath()); aCommand.setOption("-tempDir", tempDir.getAbsolutePath()); aCommand.setOption("-prefix", "temp"); if (commandLine.hasOption("useIllumina")) { aCommand.addFlag("-useIllumina"); } if (commandLine.hasOption("useClosureTrimming")) { aCommand.addFlag("-useClosureTrimming"); } if (commandLine.hasOption("trim")) { aCommand.setOption("-trim", commandLine.getOptionValue("trim")); } if (commandLine.hasOption("trimMap")) { aCommand.setOption("-trimMap", commandLine.getOptionValue("trimMap")); } if (commandLine.hasOption("chromat_dir")) { aCommand.setOption("-chromat_dir", commandLine.getOptionValue("chromat_dir")); } submitSingleCasAssemblyConversion(aCommand); } waitForAllAssembliesToFinish(); int numContigs = 0; int numReads = 0; for (int i = 0; i < numberOfCasContigs; i++) { File countMap = consedOut.getFile(i + "/temp.counts"); Scanner scanner = new Scanner(countMap); if (!scanner.hasNextInt()) { throw new IllegalStateException("single assembly conversion # " + i + " did not complete"); } numContigs += scanner.nextInt(); numReads += scanner.nextInt(); scanner.close(); } System.out.println("num contigs =" + numContigs); System.out.println("num reads =" + numReads); consedOut.createNewDir("edit_dir"); consedOut.createNewDir("phd_dir"); String prefix = commandLine.hasOption("prefix") ? commandLine.getOptionValue("prefix") : DEFAULT_PREFIX; OutputStream masterAceOut = new FileOutputStream(consedOut.createNewFile("edit_dir/" + prefix + ".ace.1")); OutputStream masterPhdOut = new FileOutputStream(consedOut.createNewFile("phd_dir/" + prefix + ".phd.ball")); OutputStream masterConsensusOut = new FileOutputStream(consedOut.createNewFile(prefix + ".consensus.fasta")); OutputStream logOut = new FileOutputStream(consedOut.createNewFile(prefix + ".log")); try { masterAceOut.write(String.format("AS %d %d%n", numContigs, numReads).getBytes()); for (int i = 0; i < numberOfCasContigs; i++) { InputStream aceIn = consedOut.getFileAsStream(i + "/temp.ace"); IOUtils.copy(aceIn, masterAceOut); InputStream phdIn = consedOut.getFileAsStream(i + "/temp.phd"); IOUtils.copy(phdIn, masterPhdOut); InputStream consensusIn = consedOut.getFileAsStream(i + "/temp.consensus.fasta"); IOUtils.copy(consensusIn, masterConsensusOut); IOUtil.closeAndIgnoreErrors(aceIn, phdIn, consensusIn); File tempDir = consedOut.getFile(i + ""); IOUtil.recursiveDelete(tempDir); } consedOut.createNewSymLink("../phd_dir/" + prefix + ".phd.ball", "edit_dir/phd.ball"); if (commandLine.hasOption("chromat_dir")) { consedOut.createNewDir("chromat_dir"); File originalChromatDir = new File(commandLine.getOptionValue("chromat_dir")); for (File chromat : originalChromatDir.listFiles(new FilenameFilter() { @Override public boolean accept(File dir, String name) { return name.endsWith(".scf"); } })) { File newChromatFile = consedOut.createNewFile("chromat_dir/" + FilenameUtils.getBaseName(chromat.getName())); FileOutputStream newChromat = new FileOutputStream(newChromatFile); InputStream in = new FileInputStream(chromat); IOUtils.copy(in, newChromat); IOUtil.closeAndIgnoreErrors(in, newChromat); } } System.out.println("finished making casAssemblies"); for (File traceFile : readIdLookup.getFiles()) { final String name = traceFile.getName(); String extension = FilenameUtils.getExtension(name); if (name.contains("fastq")) { if (!consedOut.contains("solexa_dir")) { consedOut.createNewDir("solexa_dir"); } if (consedOut.contains("solexa_dir/" + name)) { IOUtil.delete(consedOut.getFile("solexa_dir/" + name)); } consedOut.createNewSymLink(traceFile.getAbsolutePath(), "solexa_dir/" + name); } else if ("sff".equals(extension)) { if (!consedOut.contains("sff_dir")) { consedOut.createNewDir("sff_dir"); } if (consedOut.contains("sff_dir/" + name)) { IOUtil.delete(consedOut.getFile("sff_dir/" + name)); } consedOut.createNewSymLink(traceFile.getAbsolutePath(), "sff_dir/" + name); } } long endTime = DateTimeUtils.currentTimeMillis(); logOut.write(String.format("took %s%n", new Period(endTime - startTime)).getBytes()); } finally { IOUtil.closeAndIgnoreErrors(masterAceOut, masterPhdOut, masterConsensusOut, logOut); } } catch (Exception e) { handleException(e); } finally { cleanup(); } return null; } | public static boolean buildCFItem2ItemStats(String outFileName, String movieAvgFileName, String custAvgFileName) { try { File infile = new File(completePath + fSep + "SmartGRAPE" + fSep + movieAvgFileName); FileChannel inC = new FileInputStream(infile).getChannel(); int size = (int) inC.size(); ByteBuffer map = inC.map(FileChannel.MapMode.READ_ONLY, 0, size); TShortFloatHashMap movieAverages = new TShortFloatHashMap(17770, 1); inC.close(); while (map.hasRemaining()) { movieAverages.put(map.getShort(), map.getFloat()); } map = null; infile = new File(completePath + fSep + "SmartGRAPE" + fSep + custAvgFileName); inC = new FileInputStream(infile).getChannel(); size = (int) inC.size(); map = inC.map(FileChannel.MapMode.READ_ONLY, 0, size); TIntFloatHashMap custAverages = new TIntFloatHashMap(480189, 1); inC.close(); while (map.hasRemaining()) { custAverages.put(map.getInt(), map.getFloat()); } File outfile = new File(completePath + fSep + "SmartGRAPE" + fSep + outFileName); FileChannel outC = new FileOutputStream(outfile, true).getChannel(); short[] movies = CustomersAndRatingsPerMovie.keys(); Arrays.sort(movies); int noMovies = movies.length; for (int i = 0; i < noMovies - 1; i++) { short movie1 = movies[i]; TIntByteHashMap testMovieCustAndRatingsMap = (TIntByteHashMap) CustomersAndRatingsPerMovie.get(movie1); int[] customers1 = testMovieCustAndRatingsMap.keys(); Arrays.sort(customers1); System.out.println("Processing movie: " + movie1); for (int j = i + 1; j < noMovies; j++) { short movie2 = movies[j]; TIntByteHashMap otherMovieCustAndRatingsMap = (TIntByteHashMap) CustomersAndRatingsPerMovie.get(movie2); int[] customers2 = otherMovieCustAndRatingsMap.keys(); TIntArrayList intersectSet = CustOverLapForTwoMoviesCustom(customers1, customers2); int count = 0; float diffRating = 0; float pearsonCorr = 0; float cosineCorr = 0; float adjustedCosineCorr = 0; float sumX = 0; float sumY = 0; float sumXY = 0; float sumX2 = 0; float sumY2 = 0; float sumXYPearson = 0; float sumX2Pearson = 0; float sumY2Pearson = 0; float sumXYACos = 0; float sumX2ACos = 0; float sumY2ACos = 0; if ((intersectSet.size() == 0) || (intersectSet == null)) { count = 0; diffRating = 0; } else { count = intersectSet.size(); for (int l = 0; l < count; l++) { int commonCust = intersectSet.getQuick(l); byte ratingX = testMovieCustAndRatingsMap.get(commonCust); sumX += ratingX; byte ratingY = otherMovieCustAndRatingsMap.get(commonCust); sumY += ratingY; sumX2 += ratingX * ratingX; sumY2 += ratingY * ratingY; sumXY += ratingX * ratingY; diffRating += ratingX - ratingY; sumXYPearson += (ratingX - movieAverages.get(movie1)) * (ratingY - movieAverages.get(movie2)); sumX2Pearson += Math.pow((ratingX - movieAverages.get(movie1)), 2); sumY2Pearson += Math.pow((ratingY - movieAverages.get(movie2)), 2); float custAverage = custAverages.get(commonCust); sumXYACos += (ratingX - custAverage) * (ratingY - custAverage); sumX2ACos += Math.pow((ratingX - custAverage), 2); sumY2ACos += Math.pow((ratingY - custAverage), 2); } } double pearsonDenominator = Math.sqrt(sumX2Pearson) * Math.sqrt(sumY2Pearson); if (pearsonDenominator == 0.0) { pearsonCorr = 0; } else { pearsonCorr = new Double(sumXYPearson / pearsonDenominator).floatValue(); } double adjCosineDenominator = Math.sqrt(sumX2ACos) * Math.sqrt(sumY2ACos); if (adjCosineDenominator == 0.0) { adjustedCosineCorr = 0; } else { adjustedCosineCorr = new Double(sumXYACos / adjCosineDenominator).floatValue(); } double cosineDenominator = Math.sqrt(sumX2) * Math.sqrt(sumY2); if (cosineDenominator == 0.0) { cosineCorr = 0; } else { cosineCorr = new Double(sumXY / cosineDenominator).floatValue(); } ByteBuffer buf = ByteBuffer.allocate(44); buf.putShort(movie1); buf.putShort(movie2); buf.putInt(count); buf.putFloat(diffRating); buf.putFloat(sumXY); buf.putFloat(sumX); buf.putFloat(sumY); buf.putFloat(sumX2); buf.putFloat(sumY2); buf.putFloat(pearsonCorr); buf.putFloat(adjustedCosineCorr); buf.putFloat(cosineCorr); buf.flip(); outC.write(buf); buf.clear(); } } outC.close(); return true; } catch (Exception e) { e.printStackTrace(); return false; } } | 17,750 |
1 | public void write(PDDocument doc) throws COSVisitorException { document = doc; SecurityHandler securityHandler = document.getSecurityHandler(); if (securityHandler != null) { try { securityHandler.prepareDocumentForEncryption(document); this.willEncrypt = true; } catch (IOException e) { throw new COSVisitorException(e); } catch (CryptographyException e) { throw new COSVisitorException(e); } } else { this.willEncrypt = false; } COSDocument cosDoc = document.getDocument(); COSDictionary trailer = cosDoc.getTrailer(); COSArray idArray = (COSArray) trailer.getDictionaryObject("ID"); if (idArray == null) { try { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(Long.toString(System.currentTimeMillis()).getBytes()); COSDictionary info = (COSDictionary) trailer.getDictionaryObject("Info"); if (info != null) { Iterator values = info.getValues().iterator(); while (values.hasNext()) { md.update(values.next().toString().getBytes()); } } idArray = new COSArray(); COSString id = new COSString(md.digest()); idArray.add(id); idArray.add(id); trailer.setItem("ID", idArray); } catch (NoSuchAlgorithmException e) { throw new COSVisitorException(e); } } cosDoc.accept(this); } | public static String encrypt(String password, String algorithm, byte[] salt) { StringBuffer buffer = new StringBuffer(); MessageDigest digest = null; int size = 0; if ("CRYPT".equalsIgnoreCase(algorithm)) { throw new InternalError("Not implemented"); } else if ("SHA".equalsIgnoreCase(algorithm) || "SSHA".equalsIgnoreCase(algorithm)) { size = 20; if (salt != null && salt.length > 0) { buffer.append("{SSHA}"); } else { buffer.append("{SHA}"); } try { digest = MessageDigest.getInstance("SHA-1"); } catch (NoSuchAlgorithmException e) { throw new InternalError("Invalid algorithm"); } } else if ("MD5".equalsIgnoreCase(algorithm) || "SMD5".equalsIgnoreCase(algorithm)) { size = 16; if (salt != null && salt.length > 0) { buffer.append("{SMD5}"); } else { buffer.append("{MD5}"); } try { digest = MessageDigest.getInstance("MD5"); } catch (NoSuchAlgorithmException e) { throw new InternalError("Invalid algorithm"); } } int outSize = size; digest.reset(); digest.update(password.getBytes()); if (salt != null && salt.length > 0) { digest.update(salt); outSize += salt.length; } byte[] out = new byte[outSize]; System.arraycopy(digest.digest(), 0, out, 0, size); if (salt != null && salt.length > 0) { System.arraycopy(salt, 0, out, size, salt.length); } buffer.append(Base64.encode(out)); return buffer.toString(); } | 17,751 |
1 | public String getScenarioData(String urlForSalesData) throws IOException, Exception { InputStream inputStream = null; BufferedReader bufferedReader = null; DataInputStream input = null; StringBuffer sBuf = new StringBuffer(); Proxy proxy; if (httpWebProxyServer != null && Integer.toString(httpWebProxyPort) != null) { SocketAddress address = new InetSocketAddress(httpWebProxyServer, httpWebProxyPort); proxy = new Proxy(Proxy.Type.HTTP, address); } else { proxy = null; } proxy = null; URL url; try { url = new URL(urlForSalesData); HttpURLConnection httpUrlConnection; if (proxy != null) httpUrlConnection = (HttpURLConnection) url.openConnection(proxy); else httpUrlConnection = (HttpURLConnection) url.openConnection(); httpUrlConnection.setDoInput(true); httpUrlConnection.setRequestMethod("GET"); String name = rb.getString("WRAP_NAME"); String password = rb.getString("WRAP_PASSWORD"); Credentials simpleAuthCrentials = new Credentials(TOKEN_TYPE.SimpleApiAuthToken, name, password); ACSTokenProvider tokenProvider = new ACSTokenProvider(httpWebProxyServer, httpWebProxyPort, simpleAuthCrentials); String requestUriStr1 = "https://" + solutionName + "." + acmHostName + "/" + serviceName; String appliesTo1 = rb.getString("SIMPLEAPI_APPLIES_TO"); String token = tokenProvider.getACSToken(requestUriStr1, appliesTo1); httpUrlConnection.addRequestProperty("token", "WRAPv0.9 " + token); httpUrlConnection.addRequestProperty("solutionName", solutionName); httpUrlConnection.connect(); if (httpUrlConnection.getResponseCode() == HttpServletResponse.SC_UNAUTHORIZED) { List<TestSalesOrderService> salesOrderServiceBean = new ArrayList<TestSalesOrderService>(); TestSalesOrderService response = new TestSalesOrderService(); response.setResponseCode(HttpServletResponse.SC_UNAUTHORIZED); response.setResponseMessage(httpUrlConnection.getResponseMessage()); salesOrderServiceBean.add(response); } inputStream = httpUrlConnection.getInputStream(); input = new DataInputStream(inputStream); bufferedReader = new BufferedReader(new InputStreamReader(input)); String str; while (null != ((str = bufferedReader.readLine()))) { sBuf.append(str); } String responseString = sBuf.toString(); return responseString; } catch (MalformedURLException e) { throw e; } catch (IOException e) { throw e; } } | public static String getHighlightBaseLib() throws Exception { StringBuffer highlightKey = new StringBuffer(); highlightKey.append("<c color=\"" + COLOR_BASELIB + "\">\n\t"); URL url = AbstractRunner.class.getResource("baselib.js"); if (url != null) { InputStream is = url.openStream(); InputStreamReader reader = new InputStreamReader(is, "UTF-8"); BufferedReader bfReader = new BufferedReader(reader); String tmp = null; do { tmp = bfReader.readLine(); if (tmp != null) { if (tmp.indexOf("function") > -1) { highlightKey.append("<w>" + (tmp.substring(tmp.indexOf("function") + 8, tmp.indexOf("(")).trim()) + "</w>\n\t"); } } } while (tmp != null); bfReader.close(); reader.close(); is.close(); } highlightKey.append("</c>"); return highlightKey.toString(); } | 17,752 |
0 | public synchronized List<AnidbSearchResult> getAnimeTitles() throws Exception { URL url = new URL("http", host, "/api/animetitles.dat.gz"); ResultCache cache = getCache(); @SuppressWarnings("unchecked") List<AnidbSearchResult> anime = (List) cache.getSearchResult(null, Locale.ROOT); if (anime != null) { return anime; } Pattern pattern = Pattern.compile("^(?!#)(\\d+)[|](\\d)[|]([\\w-]+)[|](.+)$"); Map<Integer, String> primaryTitleMap = new HashMap<Integer, String>(); Map<Integer, Map<String, String>> officialTitleMap = new HashMap<Integer, Map<String, String>>(); Map<Integer, Map<String, String>> synonymsTitleMap = new HashMap<Integer, Map<String, String>>(); Scanner scanner = new Scanner(new GZIPInputStream(url.openStream()), "UTF-8"); try { while (scanner.hasNextLine()) { Matcher matcher = pattern.matcher(scanner.nextLine()); if (matcher.matches()) { int aid = Integer.parseInt(matcher.group(1)); String type = matcher.group(2); String language = matcher.group(3); String title = matcher.group(4); if (type.equals("1")) { primaryTitleMap.put(aid, title); } else if (type.equals("2") || type.equals("4")) { Map<Integer, Map<String, String>> titleMap = (type.equals("4") ? officialTitleMap : synonymsTitleMap); Map<String, String> languageTitleMap = titleMap.get(aid); if (languageTitleMap == null) { languageTitleMap = new HashMap<String, String>(); titleMap.put(aid, languageTitleMap); } languageTitleMap.put(language, title); } } } } finally { scanner.close(); } anime = new ArrayList<AnidbSearchResult>(primaryTitleMap.size()); for (Entry<Integer, String> entry : primaryTitleMap.entrySet()) { Map<String, String> localizedTitles = new HashMap<String, String>(); if (synonymsTitleMap.containsKey(entry.getKey())) { localizedTitles.putAll(synonymsTitleMap.get(entry.getKey())); } if (officialTitleMap.containsKey(entry.getKey())) { localizedTitles.putAll(officialTitleMap.get(entry.getKey())); } anime.add(new AnidbSearchResult(entry.getKey(), entry.getValue(), localizedTitles)); } return cache.putSearchResult(null, Locale.ROOT, anime); } | private static MyCookieData parseCookie(Cookie cookie) throws CookieException { String value = cookie.getValue(); System.out.println("original cookie: " + value); value = value.replace("%3A", ":"); value = value.replace("%40", "@"); System.out.println("cookie after replacement: " + value); String[] parts = value.split(":"); if (parts.length < 4) throw new CookieException("only " + parts.length + " parts in the cookie! " + value); String email = parts[0]; String nickname = parts[1]; boolean admin = Boolean.getBoolean(parts[2].toLowerCase()); String hsh = parts[3]; boolean valid_cookie = true; String cookie_secret = System.getProperty("COOKIE_SECRET"); if (cookie_secret == "") throw new CookieException("cookie secret is not set"); if (email.equals("")) { System.out.println("email is empty!"); nickname = ""; admin = false; } else { try { MessageDigest sha = MessageDigest.getInstance("SHA"); sha.update((email + nickname + admin + cookie_secret).getBytes()); StringBuilder builder = new StringBuilder(); for (byte b : sha.digest()) { byte tmphigh = (byte) (b >> 4); tmphigh = (byte) (tmphigh & 0xf); builder.append(hextab.charAt(tmphigh)); byte tmplow = (byte) (b & 0xf); builder.append(hextab.charAt(tmplow)); } System.out.println(); String vhsh = builder.toString(); if (!vhsh.equals(hsh)) { System.out.println("hash not same!"); System.out.println("hash passed in: " + hsh); System.out.println("hash generated: " + vhsh); valid_cookie = false; } else System.out.println("cookie match!"); } catch (NoSuchAlgorithmException ex) { } } return new MyCookieData(email, admin, nickname, valid_cookie); } | 17,753 |
0 | public void imagesParserAssesmentItem(int file, int currentquestion, Resource resTemp) { NodeList nl = null; Node n = null; NamedNodeMap nnp = null; Node nsrc = null; URL url = null; String sFilename = ""; String sNewPath = ""; int index; String sOldPath = ""; try { if (file == 1) { nl = doc.getElementsByTagName("img"); } else { nl = doc_[currentquestion].getElementsByTagName("img"); } for (int i = 0; i < nl.getLength(); i++) { n = nl.item(i); nnp = n.getAttributes(); nsrc = nnp.getNamedItem("src"); String sTemp = nsrc.getTextContent(); url = new URL("file", "localhost", sTemp); sOldPath = url.getPath(); sOldPath = sOldPath.replace('/', File.separatorChar); int indexFirstSlash = sOldPath.indexOf(File.separatorChar); String sSourcePath = sOldPath.substring(indexFirstSlash + 1); index = sOldPath.lastIndexOf(File.separatorChar); sFilename = sOldPath.substring(index + 1); sNewPath = this.sTempLocation + sFilename; FileChannel in = null; FileChannel out = null; try { in = new FileInputStream(sSourcePath).getChannel(); out = new FileOutputStream(sNewPath).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(); } if (file == 1) { sXml = sXml.replace(nsrc.getTextContent(), sFilename); } else { sXml_[currentquestion] = sXml_[currentquestion].replace(nsrc.getTextContent(), sFilename); } lsImages.add(sFilename); resTemp.addFile(sFilename); } } catch (MalformedURLException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } } | @Override public String encodePassword(String rawPass, Object salt) throws DataAccessException { try { MessageDigest digest = MessageDigest.getInstance(digestAlgorithm); digest.reset(); digest.update(((String) salt).getBytes("UTF-8")); return new String(digest.digest(rawPass.getBytes("UTF-8"))); } catch (Throwable e) { throw new DataAccessException("Error al codificar la contrase�a", e) { private static final long serialVersionUID = 3880106673612870103L; }; } } | 17,754 |
1 | public int next() { int sequenceValue = current(); try { Update update = dbi.getUpdate(); update.setTableName(sequenceTable); update.assignValue("SEQUENCE_VALUE", --sequenceValue); Search search = new Search(); search.addAttributeCriteria(sequenceTable, "SEQUENCE_NAME", Search.EQUAL, sequenceName); update.where(search); int affectedRows = dbi.getConnection().createStatement().executeUpdate(update.toString()); if (affectedRows == 1) { dbi.getConnection().commit(); } else { dbi.getConnection().rollback(); } } catch (SQLException sqle) { System.err.println("SQLException occurred in current(): " + sqle.getMessage()); } return sequenceValue; } | public void movePrior(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[moveCount - 1] + " and organize_id= '" + orgID[moveCount - 1] + "'"; try { con = dbo.getConnection(); con.setAutoCommit(false); ps = con.prepareStatement(strQuery); result = ps.executeQuery(); int maxOrderNo = 0; if (result.next()) { maxOrderNo = result.getInt(1); } String[] sqls = new String[moveCount + 1]; sqls[0] = "update " + Common.ORGANIZE_TABLE + " set show_order=" + maxOrderNo + " 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.movePrior(): ERROR Inserting data " + "in T_SYS_ORGANIZE update !! resultCount = " + resultCount); } } con.commit(); } catch (SQLException se) { if (con != null) { con.rollback(); } throw new CesSystemException("Organize.movePrior(): SQLException while mov organize order " + " :\n\t" + se); } finally { con.setAutoCommit(true); close(dbo, ps, result); } } | 17,755 |
0 | private static String readURL(URL url) throws IOException { BufferedReader in = null; StringBuffer s = new StringBuffer(); try { in = new BufferedReader(new InputStreamReader(url.openStream())); String str; while ((str = in.readLine()) != null) { s.append(str); } } finally { if (in != null) in.close(); } return s.toString(); } | public static List<String> retrieveLanguages() throws Exception { List<String> result = new ArrayList<String>(); URL url = new URL("http://translatewiki.net/w/i.php?title=Special:MessageGroupStats&group=out-osm-site"); String str = StreamUtil.toString(url.openStream()); Pattern pattern = Pattern.compile(".*language=([^;\"]+).*"); Matcher m = pattern.matcher(str); while (m.find()) { String lang = m.group(1); if (!result.contains(lang)) { result.add(lang); } } return result; } | 17,756 |
0 | public static Document validateXml(File messageFile, URL inputUrl, String[] catalogs) throws IOException, ParserConfigurationException, Exception, SAXException, FileNotFoundException { InputSource source = new InputSource(inputUrl.openStream()); Document logDoc = DomUtil.getNewDom(); XMLReader reader = SaxUtil.getXMLFormatLoggingXMLReader(log, logDoc, true, catalogs); reader.parse(source); InputStream logStream = DomUtil.serializeToInputStream(logDoc, "utf-8"); System.out.println("Creating message file \"" + messageFile.getAbsolutePath() + "\"..."); OutputStream fos = new FileOutputStream(messageFile); IOUtils.copy(logStream, fos); return logDoc; } | @Override public void onCreate(Bundle savedInstanceState) { super.onCreate(savedInstanceState); TextView tv = new TextView(this); HttpClient client = new DefaultHttpClient(); HttpGet httpGetRequest = new HttpGet("http://www.google.com/"); String line = "", responseString = ""; try { HttpResponse response = client.execute(httpGetRequest); if (response.getStatusLine().getStatusCode() == HttpStatus.SC_OK) { BufferedReader br = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); while ((line = br.readLine()) != null) { responseString += line; } br.close(); } } catch (ClientProtocolException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } tv.setText(responseString); setContentView(tv); } | 17,757 |
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()); } } } } } | public void unzip(String zipFileName, String outputDirectory) throws Exception { ZipInputStream in = new ZipInputStream(new FileInputStream(zipFileName)); ZipEntry z; while ((z = in.getNextEntry()) != null) { System.out.println("unziping " + z.getName()); if (z.isDirectory()) { String name = z.getName(); name = name.substring(0, name.length() - 1); File f = new File(outputDirectory + File.separator + name); f.mkdir(); System.out.println("mkdir " + outputDirectory + File.separator + name); } else { File f = new File(outputDirectory + File.separator + z.getName()); f.createNewFile(); FileOutputStream out = new FileOutputStream(f); int b; while ((b = in.read()) != -1) out.write(b); out.close(); } } in.close(); } | 17,758 |
0 | public APIResponse delete(String id) throws Exception { APIResponse response = new APIResponse(); connection = (HttpURLConnection) new URL(url + "/api/application/delete/" + id).openConnection(); connection.setRequestMethod("DELETE"); connection.setConnectTimeout(TIMEOUT); connection.connect(); if (connection.getResponseCode() == HttpURLConnection.HTTP_OK) { response.setDone(true); response.setMessage("Application Deleted!"); } else { response.setDone(false); response.setMessage("Delete Application Error Code: Http (" + connection.getResponseCode() + ")"); } connection.disconnect(); return response; } | public static Element postMessage() throws Exception { final URL theUrl = getHostURL(); lf.debug("url = " + theUrl.toExternalForm()); final HttpURLConnection urlConn = (HttpURLConnection) (theUrl).openConnection(); urlConn.setRequestMethod("POST"); urlConn.setDoInput(true); urlConn.setDoOutput(true); final BufferedOutputStream bos = new BufferedOutputStream(urlConn.getOutputStream()); final InputStream bis = urlConn.getInputStream(); final ByteArrayOutputStream baos = new ByteArrayOutputStream(); final byte[] buffer = new byte[1024]; int count = 0; while ((count = bis.read(buffer)) > -1) { baos.write(buffer, 0, count); } final SAXBuilder sb = new SAXBuilder(); lf.debug("Received XML response from server: " + baos.toString()); return sb.build(new StringReader(baos.toString())).getRootElement(); } | 17,759 |
1 | public void test3() throws FileNotFoundException, IOException { Decoder decoder1 = new MP3Decoder(new FileInputStream("/home/marc/tmp/test1.mp3")); Decoder decoder2 = new OggDecoder(new FileInputStream("/home/marc/tmp/test1.ogg")); FileOutputStream out = new FileOutputStream("/home/marc/tmp/test.pipe"); IOUtils.copy(decoder1, out); IOUtils.copy(decoder2, out); } | @Override public void handle(HttpExchange http) throws IOException { Headers reqHeaders = http.getRequestHeaders(); Headers respHeader = http.getResponseHeaders(); respHeader.add("Content-Type", "text/plain"); http.sendResponseHeaders(200, 0); PrintWriter console = new PrintWriter(System.err); PrintWriter web = new PrintWriter(http.getResponseBody()); PrintWriter out = new PrintWriter(new YWriter(web, console)); out.println("### " + new Date() + " ###"); out.println("Method: " + http.getRequestMethod()); out.println("Protocol: " + http.getProtocol()); out.println("RemoteAddress.HostName: " + http.getRemoteAddress().getHostName()); for (String key : reqHeaders.keySet()) { out.println("* \"" + key + "\""); for (String v : reqHeaders.get(key)) { out.println("\t" + v); } } InputStream in = http.getRequestBody(); if (in != null) { out.println(); IOUtils.copyTo(new InputStreamReader(in), out); in.close(); } out.flush(); out.close(); } | 17,760 |
0 | public void manageRequest(Transformer transformer) throws ServletException { try { this.parser.reset(); String encodedQuery = URLEncoder.encode(this.query, "ISO-8859-1"); URL url = new URL(EXIST_SERVER + "?_query=" + encodedQuery); InputStream in = url.openStream(); Document doc = this.parser.parse(in); Source source = new DOMSource(doc); transformer.transform(source, new StreamResult(this.getOut())); } catch (TransformerException e) { e.printStackTrace(); } catch (UnsupportedEncodingException e) { e.printStackTrace(); } catch (MalformedURLException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } catch (SAXException e) { e.printStackTrace(); } } | @Override public void processSource() { try { URL url = new URL(this.mensa.getJsonUrl(weekNumber)); HttpURLConnection connection = (HttpURLConnection) url.openConnection(); StringBuilder agentBuilder = new StringBuilder(); agentBuilder.append(cxt.getString(R.string.app_name)).append(' ').append(cxt.getString(R.string.app_version)).append('|').append(Build.DISPLAY).append('|').append(VERSION.RELEASE).append('|').append(Build.ID).append('|').append(Build.MODEL).append('|').append(Locale.getDefault().getLanguage()).append('-').append(Locale.getDefault().getCountry()); connection.setRequestProperty("User-Agent", agentBuilder.toString()); InputStream inStream = connection.getInputStream(); String response = getStringFromInputStream(inStream); JSONObject weekplanJsonObj = new JSONObject(response); this.menues = parseWeekplan(weekplanJsonObj); this.valuability = WeekPlan.VALUABLE; } catch (IOException ex) { this.valuability = WeekPlan.NOCON; this.menues = null; } catch (JSONException ex) { this.valuability = WeekPlan.ERROR; this.menues = null; } } | 17,761 |
0 | public void unzip(final File outDir) throws IOException { ZipInputStream input = new ZipInputStream(new ByteArrayInputStream(this.bytes)); ZipEntry entry = input.getNextEntry(); while (entry != null) { entry = input.getNextEntry(); if (entry != null) { File file = this.createFile(outDir, entry.getName()); if (!entry.isDirectory()) { FileOutputStream output = new FileOutputStream(file); IOUtils.copy(input, output); output.close(); } } } input.close(); } | public void run(IProgressMonitor monitor) throws InvocationTargetException, InterruptedException { try { URL url; URLConnection urlConn; DataOutputStream dos; DataInputStream dis; monitor.beginTask("Uploading log to placelab.org", 100); StringBuffer dfsb = new SimpleDateFormat("M/dd/yyyy").format(new java.util.Date(), new StringBuffer(), new FieldPosition(0)); String dateStr = dfsb.toString(); monitor.subTask("Connecting"); if (monitor.isCanceled()) throw new InterruptedException(); url = new URL(urlString); urlConn = url.openConnection(); urlConn.setDoInput(true); urlConn.setDoOutput(true); urlConn.setUseCaches(false); urlConn.setRequestProperty("Content-Type", "application/x-www-form-urlencoded"); dos = new DataOutputStream(urlConn.getOutputStream()); monitor.worked(10); monitor.subTask("Encoding headers"); if (monitor.isCanceled()) throw new InterruptedException(); String args = "username=" + URLEncoder.encode(username) + "&" + "passwd=" + URLEncoder.encode(passwd) + "&" + "readDisclaimer=agree&" + "cvt_to_ns=true&" + "trace_device=" + URLEncoder.encode(device) + "&" + "trace_descr=" + URLEncoder.encode(description) + "&" + "mailBack=on&" + "simple_output=true&" + "trace_date=" + URLEncoder.encode(dateStr) + "&" + "trace_data="; if (header != null) { args = args + URLEncoder.encode(header); } System.out.println("upload args = " + args); dos.writeBytes(args); monitor.worked(5); monitor.subTask("Sending log"); if (monitor.isCanceled()) throw new InterruptedException(); File f = new File(file); long numBytes = f.length(); FileInputStream is = new FileInputStream(file); boolean done = false; byte[] buf = new byte[1024]; while (!done) { int cnt = is.read(buf, 0, buf.length); if (cnt == -1) { done = true; } else { if (monitor.isCanceled()) throw new InterruptedException(); dos.writeBytes(URLEncoder.encode(new String(buf, 0, cnt))); Logger.println(URLEncoder.encode(new String(buf, 0, cnt)), Logger.HIGH); monitor.worked((int) (((double) cnt / (double) numBytes) * 80)); } } is.close(); dos.flush(); dos.close(); monitor.subTask("getting response from placelab.org"); if (monitor.isCanceled()) throw new InterruptedException(); dis = new DataInputStream(urlConn.getInputStream()); StringBuffer sb = new StringBuffer(); done = false; while (!done) { int read = dis.read(buf, 0, buf.length); if (read == -1) { done = true; } else { sb.append(new String(buf, 0, read)); } } String s = sb.toString(); dis.close(); Logger.println("Got back " + s, Logger.LOW); if (s.equals("SUCCESS")) { Logger.println("Whoo!!!", Logger.HIGH); } else { Logger.println("Post Error!", Logger.HIGH); throw new InvocationTargetException(new PlacelabOrgFailure(s)); } monitor.worked(5); monitor.done(); } catch (InterruptedException ie) { throw new InterruptedException(); } catch (Exception e) { throw new InvocationTargetException(e); } } | 17,762 |
0 | @Test public void testEmptyValue() throws Exception { System.out.println("Test Empty Value..."); EProperties props = new EProperties(); URL url = this.getClass().getResource("emptyval.properties"); System.out.println("Properties URL " + url); System.out.println("****************** LOADING URL *************************"); props.load(url); System.out.println("---list---"); System.out.println(props.list()); System.out.println("---list---"); System.out.println("****************** LOADING Reader *************************"); EProperties p2 = new EProperties(); p2.load(new InputStreamReader(url.openStream())); System.out.println("---list---"); System.out.println(p2.list()); System.out.println("---list---"); } | private void readURL(URL url) throws IOException { statusLine.setText("Opening " + url.toExternalForm()); URLConnection connection = url.openConnection(); StringBuffer buffer = new StringBuffer(); BufferedReader in = null; try { in = new BufferedReader(new InputStreamReader(connection.getInputStream())); String line; while ((line = in.readLine()) != null) { buffer.append(line).append('\n'); statusLine.setText("Read " + buffer.length() + " bytes..."); } } finally { if (in != null) in.close(); } String type = connection.getContentType(); if (type == null) type = "text/plain"; statusLine.setText("Content type " + type); content.setContentType(type); content.setText(buffer.toString()); statusLine.setText("Done"); } | 17,763 |
0 | private void renameTo(File from, File to) { if (!from.exists()) return; if (to.exists()) to.delete(); boolean worked = false; try { worked = from.renameTo(to); } catch (Exception e) { database.logError(this, "" + e, null); } if (!worked) { database.logWarning(this, "Could not rename GEDCOM to " + to.getAbsolutePath(), null); try { to.delete(); final FileReader in = new FileReader(from); final FileWriter out = new FileWriter(to); int c; while ((c = in.read()) != -1) out.write(c); in.close(); out.close(); from.delete(); } catch (Exception e) { database.logError(this, "" + e, null); } } } | private static void initialize() throws IOException { System.out.println("Getting startup cookies from localhostr.com"); HttpGet httpget = new HttpGet("http://localhostr.com/"); if (login) { httpget.setHeader("Cookie", sessioncookie); } HttpResponse myresponse = httpclient.execute(httpget); HttpEntity myresEntity = myresponse.getEntity(); localhostrurl = EntityUtils.toString(myresEntity); localhostrurl = parseResponse(localhostrurl, "url : '", "'"); System.out.println("Localhost url : " + localhostrurl); InputStream is = myresponse.getEntity().getContent(); is.close(); } | 17,764 |
0 | public MapInfo loadLocalMapData(String fileName) { MapInfo info = mapCacheLocal.get(fileName); if (info != null && info.getContent() == null) { try { BufferedReader bufferedreader; URL fetchUrl = new URL(localMapContextUrl, fileName); URLConnection urlconnection = fetchUrl.openConnection(); if (urlconnection.getContentEncoding() != null) { bufferedreader = new BufferedReader(new InputStreamReader(urlconnection.getInputStream(), urlconnection.getContentEncoding())); } else { bufferedreader = new BufferedReader(new InputStreamReader(urlconnection.getInputStream(), "utf-8")); } String line; StringBuilder mapContent = new StringBuilder(); while ((line = bufferedreader.readLine()) != null) { mapContent.append(line); mapContent.append("\n"); } info.setContent(mapContent.toString()); GameMapImplementation gameMap = GameMapImplementation.createFromMapInfo(info); } catch (IOException _ex) { System.err.println("HexTD::readFile:: Can't read from " + fileName); } } else { System.err.println("HexTD::readFile:: file not in cache: " + fileName); } return info; } | public static File unGzip(File infile, boolean deleteGzipfileOnSuccess) throws IOException { GZIPInputStream gin = new GZIPInputStream(new FileInputStream(infile)); File outFile = new File(infile.getParent(), infile.getName().replaceAll("\\.gz$", "")); FileOutputStream fos = new FileOutputStream(outFile); byte[] buf = new byte[100000]; int len; while ((len = gin.read(buf)) > 0) fos.write(buf, 0, len); gin.close(); fos.close(); if (deleteGzipfileOnSuccess) infile.delete(); return outFile; } | 17,765 |
0 | public boolean copy(String file, String path) { try { File file_in = new File(file); String tmp1, tmp2; tmp1 = file; tmp2 = path; while (tmp2.contains("\\")) { tmp2 = tmp2.substring(tmp2.indexOf("\\") + 1); tmp1 = tmp1.substring(tmp1.indexOf("\\") + 1); } tmp1 = file.substring(0, file.length() - tmp1.length()) + tmp2 + tmp1.substring(tmp1.indexOf("\\")); File file_out = new File(tmp1); 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; } } | public static void main(String[] args) { try { String user = "techbeherca"; String targetUrl = "http://api.fanfou.com/statuses/user_timeline.xml?id=" + user; URL url = new URL(targetUrl); InputStream in = url.openStream(); ArrayList<MessageObj> list; if (in != null) { MessageListDOMParser parser = new MessageListDOMParser(); list = (ArrayList<MessageObj>) parser.parseXML(in); TransactionDAO dao = new TransactionDAO(); dao.insert(list); } } catch (Exception e) { e.printStackTrace(); } } | 17,766 |
0 | public boolean copy(File fromFile) throws IOException { FileUtility toFile = this; if (!fromFile.exists()) { abort("FileUtility: no such source file: " + fromFile.getAbsolutePath()); return false; } if (!fromFile.isFile()) { abort("FileUtility: can't copy directory: " + fromFile.getAbsolutePath()); return false; } if (!fromFile.canRead()) { abort("FileUtility: source file is unreadable: " + fromFile.getAbsolutePath()); return false; } if (this.isDirectory()) toFile = (FileUtility) (new File(this, fromFile.getName())); if (toFile.exists()) { if (!toFile.canWrite()) { abort("FileUtility: destination file is unwriteable: " + pathName); return false; } } else { String parent = toFile.getParent(); File dir = new File(parent); if (!dir.exists()) { abort("FileUtility: destination directory doesn't exist: " + parent); return false; } if (dir.isFile()) { abort("FileUtility: destination is not a directory: " + parent); return false; } if (!dir.canWrite()) { abort("FileUtility: destination directory is unwriteable: " + parent); return false; } } FileInputStream from = null; FileOutputStream to = null; try { from = new FileInputStream(fromFile); to = new FileOutputStream(toFile); byte[] buffer = new byte[4096]; int bytes_read; while ((bytes_read = from.read(buffer)) != -1) to.write(buffer, 0, bytes_read); } finally { if (from != null) try { from.close(); } catch (IOException e) { ; } if (to != null) try { to.close(); } catch (IOException e) { ; } } return true; } | public String encripta(String senha) { try { MessageDigest digest = MessageDigest.getInstance("MD5"); digest.update(senha.getBytes()); BASE64Encoder encoder = new BASE64Encoder(); return encoder.encode(digest.digest()); } catch (NoSuchAlgorithmException ns) { ns.printStackTrace(); return senha; } } | 17,767 |
1 | public boolean backup() { try { File sd = Environment.getExternalStorageDirectory(); File data = Environment.getDataDirectory(); if (sd.canWrite()) { String currentDBPath = "/data/android.bluebox/databases/bluebox.db"; String backupDBPath = "/Android/bluebox.bak"; File currentDB = new File(data, currentDBPath); File backupDB = new File(sd, backupDBPath); if (currentDB.exists()) { FileChannel src = new FileInputStream(currentDB).getChannel(); FileChannel dst = new FileOutputStream(backupDB).getChannel(); dst.transferFrom(src, 0, src.size()); src.close(); dst.close(); return true; } } } catch (FileNotFoundException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } return false; } | public static void copyFile(final File source, final 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(); } } } | 17,768 |
0 | public LogoutHandler(String username, String token) { try { URL url = new URL("http://eiffel.itba.edu.ar/hci/service/Security.groovy?method=LogOut&username=" + username + "&authentication_token=" + token); URLConnection urlc = url.openConnection(); urlc.setDoOutput(false); urlc.setAllowUserInteraction(false); BufferedReader br = new BufferedReader(new InputStreamReader(urlc.getInputStream())); String str; StringBuffer sb = new StringBuffer(); while ((str = br.readLine()) != null) { sb.append(str); sb.append("\n"); } br.close(); String response = sb.toString(); if (response == null) { return; } DocumentBuilderFactory dbf = DocumentBuilderFactory.newInstance(); DocumentBuilder db = dbf.newDocumentBuilder(); InputSource is = new InputSource(); is.setCharacterStream(new StringReader(response)); Document dom = db.parse(is); NodeList nl = dom.getElementsByTagName("response"); String status = ((Element) nl.item(0)).getAttributes().item(0).getTextContent(); if (status.toString().equals("fail")) { return; } } catch (Exception e) { e.printStackTrace(); } } | @Test public void testCustomerResource() throws Exception { DefaultHttpClient client = new DefaultHttpClient(); System.out.println("**** CustomerResource No Query params ***"); HttpGet get = new HttpGet("http://localhost:9095/customers"); HttpResponse response = client.execute(get); Assert.assertEquals(200, response.getStatusLine().getStatusCode()); BufferedReader reader = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); String line = reader.readLine(); while (line != null) { System.out.println(line); line = reader.readLine(); } System.out.println("**** CustomerResource With Query params ***"); get = new HttpGet("http://localhost:9095/customers?start=1&size=3"); response = client.execute(get); Assert.assertEquals(200, response.getStatusLine().getStatusCode()); reader = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); line = reader.readLine(); while (line != null) { System.out.println(line); line = reader.readLine(); } System.out.println("**** CustomerResource With UriInfo and Query params ***"); get = new HttpGet("http://localhost:9095/customers/uriinfo?start=2&size=2"); response = client.execute(get); Assert.assertEquals(200, response.getStatusLine().getStatusCode()); reader = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); line = reader.readLine(); while (line != null) { System.out.println(line); line = reader.readLine(); } } | 17,769 |
1 | private void parseExternalCss(Document d) throws XPathExpressionException, IOException { InputStream is = null; try { XPath xp = xpf.newXPath(); XPathExpression xpe = xp.compile("//link[@type='text/css']/@href"); NodeList nl = (NodeList) xpe.evaluate(d, XPathConstants.NODESET); for (int i = 0; i < nl.getLength(); i++) { Attr a = (Attr) nl.item(i); String url = a.getValue(); URL u = new URL(url); is = new BufferedInputStream(u.openStream()); ByteArrayOutputStream baos = new ByteArrayOutputStream(); IOUtils.copy(is, baos); parser.add(new String(baos.toByteArray(), "UTF-8")); Element linkNode = a.getOwnerElement(); Element parent = (Element) linkNode.getParentNode(); parent.removeChild(linkNode); IOUtils.closeQuietly(is); is = null; } } finally { IOUtils.closeQuietly(is); } } | public static void main(String[] args) { try { boolean readExp = Utils.getFlag('l', args); final boolean writeExp = Utils.getFlag('s', args); final String expFile = Utils.getOption('f', args); if ((readExp || writeExp) && (expFile.length() == 0)) { throw new Exception("A filename must be given with the -f option"); } Experiment exp = null; if (readExp) { FileInputStream fi = new FileInputStream(expFile); ObjectInputStream oi = new ObjectInputStream(new BufferedInputStream(fi)); exp = (Experiment) oi.readObject(); oi.close(); } else { exp = new Experiment(); } System.err.println("Initial Experiment:\n" + exp.toString()); final JFrame jf = new JFrame("Weka Experiment Setup"); jf.getContentPane().setLayout(new BorderLayout()); final SetupPanel sp = new SetupPanel(); jf.getContentPane().add(sp, BorderLayout.CENTER); jf.addWindowListener(new WindowAdapter() { public void windowClosing(WindowEvent e) { System.err.println("\nFinal Experiment:\n" + sp.m_Exp.toString()); if (writeExp) { try { FileOutputStream fo = new FileOutputStream(expFile); ObjectOutputStream oo = new ObjectOutputStream(new BufferedOutputStream(fo)); oo.writeObject(sp.m_Exp); oo.close(); } catch (Exception ex) { ex.printStackTrace(); System.err.println("Couldn't write experiment to: " + expFile + '\n' + ex.getMessage()); } } jf.dispose(); System.exit(0); } }); jf.pack(); jf.setVisible(true); System.err.println("Short nap"); Thread.currentThread().sleep(3000); System.err.println("Done"); sp.setExperiment(exp); } catch (Exception ex) { ex.printStackTrace(); System.err.println(ex.getMessage()); } } | 17,770 |
1 | public String stringOfUrl(String addr) throws IOException { ByteArrayOutputStream output = new ByteArrayOutputStream(); URL url = new URL(addr); IOUtils.copy(url.openStream(), output); return output.toString(); } | public static void zipDirectory(String dir, String zipfile) throws IOException, IllegalArgumentException { File d = new File(dir); if (!d.isDirectory()) throw new IllegalArgumentException("Not a directory: " + dir); String[] entries = d.list(); byte[] buffer = new byte[4096]; int bytesRead; ZipOutputStream out = new ZipOutputStream(new FileOutputStream(zipfile)); for (int i = 0; i < entries.length; i++) { File f = new File(d, entries[i]); if (f.isDirectory()) continue; FileInputStream in = new FileInputStream(f); ZipEntry entry = new ZipEntry(f.getPath()); out.putNextEntry(entry); while ((bytesRead = in.read(buffer)) != -1) out.write(buffer, 0, bytesRead); in.close(); } out.close(); } | 17,771 |
0 | byte[] makeIDPFXORMask() { if (idpfMask == null) { try { MessageDigest sha = MessageDigest.getInstance("SHA-1"); String temp = strip(getPrimaryIdentifier()); sha.update(temp.getBytes("UTF-8"), 0, temp.length()); idpfMask = sha.digest(); } catch (NoSuchAlgorithmException e) { System.err.println("No such Algorithm (really, did I misspell SHA-1?"); System.err.println(e.toString()); return null; } catch (IOException e) { System.err.println("IO Exception. check out mask.write..."); System.err.println(e.toString()); return null; } } return idpfMask; } | @Override public void create(DisciplinaDTO disciplina) { try { this.criaConexao(false); } catch (ClassNotFoundException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } String sql = "insert into Disciplina select nextval('sq_Disciplina') as id, ? as nome"; PreparedStatement stmt = null; try { stmt = this.getConnection().prepareStatement(sql); stmt.setString(1, disciplina.getNome()); int retorno = stmt.executeUpdate(); if (retorno == 0) { this.getConnection().rollback(); throw new SQLException("Ocorreu um erro inesperado no momento de inserir dados de Disciplina no banco!"); } this.getConnection().commit(); } catch (SQLException e) { try { this.getConnection().rollback(); } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } try { throw e; } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } } finally { try { stmt.close(); this.fechaConexao(); } catch (SQLException e) { try { throw e; } catch (SQLException ex) { java.util.logging.Logger.getLogger(PostgresqlDisciplinaDAO.class.getName()).log(Level.SEVERE, null, ex); } } } } | 17,772 |
0 | private RSSFeed getFeed(String urlToRssFeed) { try { URL url = new URL(urlToRssFeed); SAXParserFactory factory = SAXParserFactory.newInstance(); SAXParser parser = factory.newSAXParser(); XMLReader xmlreader = parser.getXMLReader(); RSSHandler theRssHandler = new RSSHandler(); xmlreader.setContentHandler(theRssHandler); InputSource is = new InputSource(url.openStream()); xmlreader.parse(is); return theRssHandler.getFeed(); } catch (Exception ee) { return null; } } | public void doImport(File f, boolean checkHosp) throws Exception { connector.getConnection().setAutoCommit(false); File base = f.getParentFile(); ZipInputStream in = new ZipInputStream(new FileInputStream(f)); ZipEntry entry; while ((entry = in.getNextEntry()) != null) { String outFileName = entry.getName(); File outFile = new File(base, outFileName); OutputStream out = new FileOutputStream(outFile, false); byte[] buf = new byte[1024]; int len; while ((len = in.read(buf)) > 0) out.write(buf, 0, len); out.close(); } in.close(); importDirectory(base, checkHosp); connector.getConnection().commit(); } | 17,773 |
0 | public InputSource resolveEntity(String publicId, String systemId) { allowXMLCatalogPI = false; String resolved = catalogResolver.getResolvedEntity(publicId, systemId); if (resolved == null && piCatalogResolver != null) { resolved = piCatalogResolver.getResolvedEntity(publicId, systemId); } if (resolved != null) { try { InputSource iSource = new InputSource(resolved); iSource.setPublicId(publicId); URL url = new URL(resolved); InputStream iStream = url.openStream(); iSource.setByteStream(iStream); return iSource; } catch (Exception e) { catalogManager.debug.message(1, "Failed to create InputSource", resolved); return null; } } else { return null; } } | public void sendMessage(Message msg) { if (!blackList.contains(msg.getTo())) { Hashtable<String, String> content = msg.getContent(); Enumeration<String> keys = content.keys(); String key; String data = "to=" + msg.getTo() + "&from=" + msg.getFrom() + "&"; while (keys.hasMoreElements()) { key = (String) keys.nextElement(); data += key + "=" + content.get(key) + "&"; } URL url = null; try { logger.log(this, Level.FINER, "sending " + data + " to " + msg.getTo()); url = new URL("http://" + msg.getTo() + ":8080/webmsgservice?" + data); BufferedReader in = new BufferedReader(new InputStreamReader(url.openStream())); in.readLine(); in.close(); logger.log(this, Level.FINER, "message sent to " + msg.getTo()); } catch (MalformedURLException e) { blackList.add(msg.getTo()); logger.log(this, Level.WARNING, "an error occured during message sending (" + msg.getTo() + ") : " + e.getMessage()); e.printStackTrace(); } catch (IOException e) { logger.log(this, Level.WARNING, "an error occured during message sending (" + msg.getTo() + ") : " + e.getMessage()); blackList.add(msg.getTo()); } } else { logger.log(this, Level.FINE, "will not send message to " + msg.getTo() + " because black listed IP"); } } | 17,774 |
0 | public void convert(File src, File dest) throws IOException { InputStream in = new BufferedInputStream(new FileInputStream(src)); DcmParser p = pfact.newDcmParser(in); Dataset ds = fact.newDataset(); p.setDcmHandler(ds.getDcmHandler()); try { FileFormat format = p.detectFileFormat(); if (format != FileFormat.ACRNEMA_STREAM) { System.out.println("\n" + src + ": not an ACRNEMA stream!"); return; } p.parseDcmFile(format, Tags.PixelData); if (ds.contains(Tags.StudyInstanceUID) || ds.contains(Tags.SeriesInstanceUID) || ds.contains(Tags.SOPInstanceUID) || ds.contains(Tags.SOPClassUID)) { System.out.println("\n" + src + ": contains UIDs!" + " => probable already DICOM - do not convert"); return; } boolean hasPixelData = p.getReadTag() == Tags.PixelData; boolean inflate = hasPixelData && ds.getInt(Tags.BitsAllocated, 0) == 12; int pxlen = p.getReadLength(); if (hasPixelData) { if (inflate) { ds.putUS(Tags.BitsAllocated, 16); pxlen = pxlen * 4 / 3; } if (pxlen != (ds.getInt(Tags.BitsAllocated, 0) >>> 3) * ds.getInt(Tags.Rows, 0) * ds.getInt(Tags.Columns, 0) * ds.getInt(Tags.NumberOfFrames, 1) * ds.getInt(Tags.NumberOfSamples, 1)) { System.out.println("\n" + src + ": mismatch pixel data length!" + " => do not convert"); return; } } ds.putUI(Tags.StudyInstanceUID, uid(studyUID)); ds.putUI(Tags.SeriesInstanceUID, uid(seriesUID)); ds.putUI(Tags.SOPInstanceUID, uid(instUID)); ds.putUI(Tags.SOPClassUID, classUID); if (!ds.contains(Tags.NumberOfSamples)) { ds.putUS(Tags.NumberOfSamples, 1); } if (!ds.contains(Tags.PhotometricInterpretation)) { ds.putCS(Tags.PhotometricInterpretation, "MONOCHROME2"); } if (fmi) { ds.setFileMetaInfo(fact.newFileMetaInfo(ds, UIDs.ImplicitVRLittleEndian)); } OutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); try { } finally { ds.writeFile(out, encodeParam()); if (hasPixelData) { if (!skipGroupLen) { out.write(PXDATA_GROUPLEN); int grlen = pxlen + 8; out.write((byte) grlen); out.write((byte) (grlen >> 8)); out.write((byte) (grlen >> 16)); out.write((byte) (grlen >> 24)); } out.write(PXDATA_TAG); out.write((byte) pxlen); out.write((byte) (pxlen >> 8)); out.write((byte) (pxlen >> 16)); out.write((byte) (pxlen >> 24)); } if (inflate) { int b2, b3; for (; pxlen > 0; pxlen -= 3) { out.write(in.read()); b2 = in.read(); b3 = in.read(); out.write(b2 & 0x0f); out.write(b2 >> 4 | ((b3 & 0x0f) << 4)); out.write(b3 >> 4); } } else { for (; pxlen > 0; --pxlen) { out.write(in.read()); } } out.close(); } System.out.print('.'); } finally { in.close(); } } | static Collection<InetSocketAddress> getAddresses(Context ctx, long userId) throws Exception { AGLog.d(TAG, "Connecting to HTTP service to obtain IP addresses"); String host = (String) ctx.getResources().getText(R.string.gg_webservice_addr); String ver = App.getInstance().getGGClientVersion(); String url = host + "?fmnumber=" + Long.toString(userId) + "&lastmsg=0&version=" + ver; HttpClient httpClient = new DefaultHttpClient(); AGLog.d(TAG, "connecting to http service at " + url); HttpGet request = new HttpGet(url); HttpResponse response = httpClient.execute(request); AGLog.d(TAG, "response status:" + response.getStatusLine().getReasonPhrase()); HttpEntity ent = response.getEntity(); if (ent == null) { AGLog.e(TAG, "No response entity"); throw new ClientProtocolException("No response entity"); } InputStream content = ent.getContent(); BufferedReader reader = new BufferedReader(new InputStreamReader(content)); String line = reader.readLine(); AGLog.d(TAG, "response: " + line); StringTokenizer tokenizer = new StringTokenizer(line, " "); @SuppressWarnings("unused") String status = tokenizer.nextToken(); @SuppressWarnings("unused") String unknown = tokenizer.nextToken(); ArrayList<InetSocketAddress> result = new ArrayList<InetSocketAddress>(); while (tokenizer.hasMoreTokens()) { StringTokenizer addrport = new StringTokenizer(tokenizer.nextToken(), ":"); String addrStr = addrport.nextToken(); if (InetAddressUtils.isIPv4Address(addrStr)) { AGLog.d(TAG, "Address decoded successfully: " + addrStr); } else { AGLog.w(TAG, "Failed to decode address: " + addrStr); continue; } String portStr; if (addrport.hasMoreTokens()) { portStr = addrport.nextToken(); } else { portStr = (String) ctx.getResources().getText(R.string.gg_default_port); } AGLog.d(TAG, "Port decoded successfully: " + portStr); short port = Short.decode(portStr); result.add(new InetSocketAddress(addrStr, port)); } return result; } | 17,775 |
0 | protected void load() throws IOException { for (ClassLoader classLoader : classLoaders) { Enumeration<URL> en = classLoader.getResources("META-INF/services/" + serviceClass.getName()); while (en.hasMoreElements()) { URL url = en.nextElement(); InputStream in = url.openStream(); try { BufferedReader reader = new BufferedReader(new InputStreamReader(in)); try { String line = null; while ((line = reader.readLine()) != null) { if (!line.startsWith("#")) { line = line.trim(); if (line.length() > 0) contributions.add(resolveClass(url, line)); } } } finally { reader.close(); } } finally { in.close(); } } } } | public static void main(String[] args) throws IOException { System.setProperty("java.protocol.xfile", "com.luzan.common.nfs"); if (args.length < 1) usage(); final String cmd = args[0]; if ("delete".equalsIgnoreCase(cmd)) { final String path = getParameter(args, 1); XFile xfile = new XFile(path); if (!xfile.exists()) { System.out.print("File doean't exist.\n"); System.exit(1); } xfile.delete(); } else if ("copy".equalsIgnoreCase(cmd)) { final String pathFrom = getParameter(args, 1); final String pathTo = getParameter(args, 2); final XFile xfileFrom = new XFile(pathFrom); final XFile xfileTo = new XFile(pathTo); if (!xfileFrom.exists()) { System.out.print("File doesn't exist.\n"); System.exit(1); } final String mime = getParameter(args, 3, null); final XFileInputStream in = new XFileInputStream(xfileFrom); final XFileOutputStream xout = new XFileOutputStream(xfileTo); if (!StringUtils.isEmpty(mime)) { final com.luzan.common.nfs.s3.XFileExtensionAccessor xfa = ((com.luzan.common.nfs.s3.XFileExtensionAccessor) xfileTo.getExtensionAccessor()); if (xfa != null) { xfa.setMimeType(mime); xfa.setContentLength(xfileFrom.length()); } } IOUtils.copy(in, xout); xout.flush(); xout.close(); in.close(); } } | 17,776 |
1 | public void copyFile2(String src, String dest) throws IOException { String newLine = System.getProperty("line.separator"); FileWriter fw = null; FileReader fr = null; BufferedReader br = null; BufferedWriter bw = null; File source = null; try { fr = new FileReader(src); fw = new FileWriter(dest); br = new BufferedReader(fr); bw = new BufferedWriter(fw); source = new File(src); int fileLength = (int) source.length(); char charBuff[] = new char[fileLength]; while (br.read(charBuff, 0, fileLength) != -1) bw.write(charBuff, 0, fileLength); } catch (FileNotFoundException fnfe) { throw new FileCopyException(src + " " + QZ.PHRASES.getPhrase("35")); } catch (IOException ioe) { throw new FileCopyException(QZ.PHRASES.getPhrase("36")); } finally { try { if (br != null) br.close(); if (bw != null) bw.close(); } catch (IOException ioe) { } } } | public static void main(String[] args) throws IOException { System.out.println("Start filtering zgps..."); final Config config = ConfigUtils.loadConfig(args[0]); final String CONFIG_MODULE = "GPSFilterZGPS"; File sourceFileSelectedStages = new File(config.findParam(CONFIG_MODULE, "sourceFileSelectedStages")); File sourceFileZGPS = new File(config.findParam(CONFIG_MODULE, "sourceFileZGPS")); File targetFile = new File(config.findParam(CONFIG_MODULE, "targetFile")); System.out.println("Start reading selected stages..."); FilterZGPSSelectedStages selectedStages = new FilterZGPSSelectedStages(); selectedStages.createSelectedStages(sourceFileSelectedStages); System.out.println("Done. " + selectedStages.getSelectedStages().size() + " stages were stored"); System.out.println("Start reading and writing zgps..."); try { BufferedReader in = new BufferedReader(new InputStreamReader(new FileInputStream(sourceFileZGPS))); BufferedWriter out = new BufferedWriter(new FileWriter(targetFile)); out.write(in.readLine()); out.newLine(); String lineFromInputFile; while ((lineFromInputFile = in.readLine()) != null) { String[] entries = lineFromInputFile.split("\t"); if (selectedStages.containsStage(Integer.parseInt(entries[0]), Integer.parseInt(entries[1]), Integer.parseInt(entries[2]))) { out.write(lineFromInputFile); out.newLine(); out.flush(); } } in.close(); out.close(); } catch (FileNotFoundException e) { System.out.println("Could not find source file for selected stages."); e.printStackTrace(); } catch (IOException e) { System.out.println("IO Exception while reading or writing zgps."); e.printStackTrace(); } System.out.println("Done."); } | 17,777 |
0 | public void testDoubleNaN() { double value = 0; boolean wasEqual = false; String message = "DB operation completed"; String ddl1 = "DROP TABLE t1 IF EXISTS;" + "CREATE TABLE t1 ( d DECIMAL, f DOUBLE, l BIGINT, i INTEGER, s SMALLINT, t TINYINT, " + "dt DATE DEFAULT CURRENT_DATE, ti TIME DEFAULT CURRENT_TIME, ts TIMESTAMP DEFAULT CURRENT_TIMESTAMP );"; try { stmnt.execute(ddl1); PreparedStatement ps = connection.prepareStatement("INSERT INTO t1 (d,f,l,i,s,t,dt,ti,ts) VALUES (?,?,?,?,?,?,?,?,?)"); ps.setString(1, "0.2"); ps.setDouble(2, 0.2); ps.setLong(3, java.lang.Long.MAX_VALUE); ps.setInt(4, Integer.MAX_VALUE); ps.setInt(5, Short.MAX_VALUE); ps.setInt(6, 0); ps.setDate(7, new java.sql.Date(System.currentTimeMillis())); ps.setTime(8, new java.sql.Time(System.currentTimeMillis())); ps.setTimestamp(9, new java.sql.Timestamp(System.currentTimeMillis())); ps.execute(); ps.setInt(1, 0); ps.setDouble(2, java.lang.Double.NaN); ps.setLong(3, java.lang.Long.MIN_VALUE); ps.setInt(4, Integer.MIN_VALUE); ps.setInt(5, Short.MIN_VALUE); ps.setInt(6, 0); ps.setTimestamp(7, new java.sql.Timestamp(System.currentTimeMillis() + 1)); ps.setTime(8, new java.sql.Time(System.currentTimeMillis() + 1)); ps.setDate(9, new java.sql.Date(System.currentTimeMillis() + 1)); ps.execute(); ps.setInt(1, 0); ps.setDouble(2, java.lang.Double.POSITIVE_INFINITY); ps.setInt(4, Integer.MIN_VALUE); ps.setObject(5, Boolean.TRUE); ps.setBoolean(5, true); ps.setObject(5, new Short((short) 2), Types.SMALLINT); ps.setObject(6, new Integer(2), Types.TINYINT); ps.setObject(7, new java.sql.Date(System.currentTimeMillis() + 2)); ps.setObject(8, new java.sql.Time(System.currentTimeMillis() + 2)); ps.setObject(9, new java.sql.Timestamp(System.currentTimeMillis() + 2)); ps.execute(); ps.setObject(1, new Float(0), Types.INTEGER); ps.setObject(4, new Float(1), Types.INTEGER); ps.setDouble(2, java.lang.Double.NEGATIVE_INFINITY); ps.execute(); ResultSet rs = stmnt.executeQuery("SELECT d, f, l, i, s*2, t FROM t1"); boolean result = rs.next(); value = rs.getDouble(2); int integerValue = rs.getInt(4); if (rs.next()) { value = rs.getDouble(2); wasEqual = Double.isNaN(value); integerValue = rs.getInt(4); integerValue = rs.getInt(1); } if (rs.next()) { value = rs.getDouble(2); wasEqual = wasEqual && value == Double.POSITIVE_INFINITY; } if (rs.next()) { value = rs.getDouble(2); wasEqual = wasEqual && value == Double.NEGATIVE_INFINITY; } rs = stmnt.executeQuery("SELECT MAX(i) FROM t1"); if (rs.next()) { int max = rs.getInt(1); System.out.println("Max value for i: " + max); } { stmnt.execute("drop table CDTYPE if exists"); rs = stmnt.executeQuery("CREATE TABLE cdType (ID INTEGER NOT NULL, name VARCHAR(50), PRIMARY KEY(ID))"); rs = stmnt.executeQuery("SELECT MAX(ID) FROM cdType"); if (rs.next()) { int max = rs.getInt(1); System.out.println("Max value for ID: " + max); } else { System.out.println("Max value for ID not returned"); } stmnt.executeUpdate("INSERT INTO cdType VALUES (10,'Test String');"); stmnt.executeQuery("CALL IDENTITY();"); try { stmnt.executeUpdate("INSERT INTO cdType VALUES (10,'Test String');"); } catch (SQLException e1) { stmnt.execute("ROLLBACK"); connection.rollback(); } } } catch (SQLException e) { fail(e.getMessage()); } System.out.println("testDoubleNaN complete"); assertEquals(true, wasEqual); } | public Reader create(final URI url) throws IOException { this.url = url; if (!url.isAbsolute()) { return new FileReader(new File(url.toString())); } URLConnection connection = url.toURL().openConnection(); connection.setDoInput(true); final InputStream inputStream = connection.getInputStream(); return new InputStreamReader(inputStream); } | 17,778 |
1 | public void copyFile(String source_name, String dest_name) throws IOException { File source_file = new File(source_name); File destination_file = new File(dest_name); FileInputStream source = null; FileOutputStream destination = null; byte[] buffer; int bytes_read; try { if (!source_file.exists() || !source_file.isFile()) throw new FileCopyException(MM.PHRASES.getPhrase("25") + " " + source_name); if (!source_file.canRead()) throw new FileCopyException(MM.PHRASES.getPhrase("26") + " " + MM.PHRASES.getPhrase("27") + ": " + source_name); if (destination_file.exists()) { if (destination_file.isFile()) { DataInputStream in = new DataInputStream(System.in); String response; if (!destination_file.canWrite()) throw new FileCopyException(MM.PHRASES.getPhrase("28") + " " + MM.PHRASES.getPhrase("29") + ": " + dest_name); System.out.print(MM.PHRASES.getPhrase("19") + dest_name + MM.PHRASES.getPhrase("30") + ": "); System.out.flush(); response = in.readLine(); if (!response.equals("Y") && !response.equals("y")) throw new FileCopyException(MM.PHRASES.getPhrase("31")); } else throw new FileCopyException(MM.PHRASES.getPhrase("28") + " " + MM.PHRASES.getPhrase("32") + ": " + dest_name); } else { File parentdir = parent(destination_file); if (!parentdir.exists()) throw new FileCopyException(MM.PHRASES.getPhrase("28") + " " + MM.PHRASES.getPhrase("33") + ": " + dest_name); if (!parentdir.canWrite()) throw new FileCopyException(MM.PHRASES.getPhrase("28") + " " + MM.PHRASES.getPhrase("34") + ": " + dest_name); } source = new FileInputStream(source_file); destination = new FileOutputStream(destination_file); buffer = new byte[1024]; while (true) { bytes_read = source.read(buffer); if (bytes_read == -1) break; destination.write(buffer, 0, bytes_read); } } finally { if (source != null) try { source.close(); } catch (IOException e) { ; } if (destination != null) try { destination.close(); } catch (IOException e) { ; } } } | 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(); } } | 17,779 |
0 | public static void loadFile(final URL url, final StringBuffer buffer) throws IOException { InputStream in = null; BufferedReader dis = null; try { in = url.openStream(); dis = new BufferedReader(new InputStreamReader(in)); int i; while ((i = dis.read()) != -1) { buffer.append((char) i); } } finally { closeStream(in); closeReader(dis); } } | public void overwriteTest() throws Exception { SRBAccount srbAccount = new SRBAccount("srb1.ngs.rl.ac.uk", 5544, this.cred); srbAccount.setDefaultStorageResource("ral-ngs1"); SRBFileSystem client = new SRBFileSystem(srbAccount); client.setFirewallPorts(64000, 65000); String home = client.getHomeDirectory(); System.out.println("home: " + home); SRBFile file = new SRBFile(client, home + "/test.txt"); assertTrue(file.exists()); File filefrom = new File("/tmp/from.txt"); assertTrue(filefrom.exists()); SRBFileOutputStream to = null; InputStream from = null; try { to = new SRBFileOutputStream((SRBFile) file); from = new FileInputStream(filefrom); byte[] buffer = new byte[4096]; int bytes_read; while ((bytes_read = from.read(buffer)) != -1) { to.write(buffer, 0, bytes_read); } to.flush(); } finally { try { if (to != null) { to.close(); } } catch (Exception ex) { } try { if (from != null) { from.close(); } } catch (Exception ex) { } } } | 17,780 |
1 | public static void main(String[] args) throws IOException { System.setProperty("java.protocol.xfile", "com.luzan.common.nfs"); if (args.length < 1) usage(); final String cmd = args[0]; if ("delete".equalsIgnoreCase(cmd)) { final String path = getParameter(args, 1); XFile xfile = new XFile(path); if (!xfile.exists()) { System.out.print("File doean't exist.\n"); System.exit(1); } xfile.delete(); } else if ("copy".equalsIgnoreCase(cmd)) { final String pathFrom = getParameter(args, 1); final String pathTo = getParameter(args, 2); final XFile xfileFrom = new XFile(pathFrom); final XFile xfileTo = new XFile(pathTo); if (!xfileFrom.exists()) { System.out.print("File doesn't exist.\n"); System.exit(1); } final String mime = getParameter(args, 3, null); final XFileInputStream in = new XFileInputStream(xfileFrom); final XFileOutputStream xout = new XFileOutputStream(xfileTo); if (!StringUtils.isEmpty(mime)) { final com.luzan.common.nfs.s3.XFileExtensionAccessor xfa = ((com.luzan.common.nfs.s3.XFileExtensionAccessor) xfileTo.getExtensionAccessor()); if (xfa != null) { xfa.setMimeType(mime); xfa.setContentLength(xfileFrom.length()); } } IOUtils.copy(in, xout); xout.flush(); xout.close(); in.close(); } } | private static void serveHTML() throws Exception { Bus bus = BusFactory.getDefaultBus(); DestinationFactoryManager dfm = bus.getExtension(DestinationFactoryManager.class); DestinationFactory df = dfm.getDestinationFactory("http://cxf.apache.org/transports/http/configuration"); EndpointInfo ei = new EndpointInfo(); ei.setAddress("http://localhost:8080/test.html"); Destination d = df.getDestination(ei); d.setMessageObserver(new MessageObserver() { public void onMessage(Message message) { try { ExchangeImpl ex = new ExchangeImpl(); ex.setInMessage(message); Conduit backChannel = message.getDestination().getBackChannel(message, null, null); MessageImpl res = new MessageImpl(); res.put(Message.CONTENT_TYPE, "text/html"); backChannel.prepare(res); OutputStream out = res.getContent(OutputStream.class); FileInputStream is = new FileInputStream("test.html"); IOUtils.copy(is, out, 2048); out.flush(); out.close(); is.close(); backChannel.close(res); } catch (Exception e) { e.printStackTrace(); } } }); } | 17,781 |
1 | private void copyImage(ProjectElement e) throws Exception { String fn = e.getName(); if (!fn.toLowerCase().endsWith(".png")) { if (fn.contains(".")) { fn = fn.substring(0, fn.lastIndexOf('.')) + ".png"; } else { fn += ".png"; } } File img = new File(resFolder, fn); File imgz = new File(resoutFolder.getAbsolutePath(), fn + ".zlib"); boolean copy = true; if (img.exists() && config.containsKey(img.getName())) { long modified = Long.parseLong(config.get(img.getName())); if (modified >= img.lastModified()) { copy = false; } } if (copy) { convertImage(e.getFile(), img); config.put(img.getName(), String.valueOf(img.lastModified())); } DeflaterOutputStream out = new DeflaterOutputStream(new BufferedOutputStream(new FileOutputStream(imgz))); BufferedInputStream in = new BufferedInputStream(new FileInputStream(img)); int read; while ((read = in.read()) != -1) { out.write(read); } out.close(); in.close(); imageFiles.add(imgz); imageNames.put(imgz, e.getName()); } | public int procesar() { int mas = 0; String uriOntologia = "", source = "", uri = ""; String fichOrigenHTML = "", fichOrigenLN = ""; String ficheroOutOWL = ""; md5 firma = null; StringTokenV2 entra = null, entra2 = null, entra3 = null; FileInputStream lengNat = null; BufferedInputStream lengNat2 = null; DataInputStream entradaLenguajeNatural = null; FileWriter salOWL = null; BufferedWriter salOWL2 = null; PrintWriter salidaOWL = null; String sujeto = "", verbo = "", CD = "", CI = "", fraseOrigen = ""; StringTokenV2 token2; boolean bandera = false; OntClass c = null; OntClass cBak = null; String claseTrabajo = ""; String nombreClase = "", nombrePropiedad = "", variasPalabras = ""; int incre = 0, emergencia = 0; String lineaSalida = ""; String[] ontologia = new String[5]; ontologia[0] = "http://www.criado.info/owl/vertebrados_es.owl#"; ontologia[1] = "http://www.w3.org/2001/sw/WebOnt/guide-src/wine#"; ontologia[2] = "http://www.co-ode.org/ontologies/pizza/2005/10/18/pizza.owl#"; ontologia[3] = "http://www.w3.org/2001/sw/WebOnt/guide-src/food#"; ontologia[4] = "http://www.daml.org/2001/01/gedcom/gedcom#"; String[] ontologiaSource = new String[5]; ontologiaSource[0] = this.directorioMapeo + "\\" + "mapeo_vertebrados_es.xml"; ontologiaSource[1] = this.directorioMapeo + "\\" + "mapeo_wine_es.xml"; ontologiaSource[2] = this.directorioMapeo + "\\" + "mapeo_pizza_es.xml"; ontologiaSource[3] = this.directorioMapeo + "\\" + "mapeo_food_es.xml"; ontologiaSource[4] = this.directorioMapeo + "\\" + "mapeo_parentesco_es.xml"; mapeoIdiomas clasesOntologias; try { if ((entrada = entradaFichero.readLine()) != null) { if (entrada.trim().length() > 10) { entrada2 = new StringTokenV2(entrada.trim(), "\""); if (entrada2.isIncluidaSubcadena("<fichero ontologia=")) { ontologiaOrigen = entrada2.getToken(2); fichOrigenHTML = entrada2.getToken(4); fichOrigenLN = entrada2.getToken(6); if (ontologiaOrigen.equals("VERTEBRADOS")) { source = ontologiaSource[0]; uriOntologia = ontologia[0]; } if (ontologiaOrigen.equals("WINE")) { source = ontologiaSource[1]; uriOntologia = ontologia[1]; } if (ontologiaOrigen.equals("PIZZA")) { source = ontologiaSource[2]; uriOntologia = ontologia[2]; } if (ontologiaOrigen.equals("FOOD")) { source = ontologiaSource[3]; uriOntologia = ontologia[3]; } if (ontologiaOrigen.equals("PARENTESCOS")) { source = ontologiaSource[4]; uriOntologia = ontologia[4]; } firma = new md5(uriOntologia, false); clasesOntologias = new mapeoIdiomas(source); uri = ""; ficheroOutOWL = ""; entra2 = new StringTokenV2(fichOrigenHTML, "\\"); int numToken = entra2.getNumeroTokenTotales(); entra = new StringTokenV2(fichOrigenHTML, " "); if (entra.isIncluidaSubcadena(directorioLocal)) { entra = new StringTokenV2(entra.getQuitar(directorioLocal) + "", " "); uri = entra.getCambiar("\\", "/"); uri = entra.getQuitar(entra2.getToken(numToken)) + ""; entra3 = new StringTokenV2(entra2.getToken(numToken), "."); ficheroOutOWL = entra3.getToken(1) + "_" + firma.toString() + ".owl"; uri = urlPatron + uri + ficheroOutOWL; } entra3 = new StringTokenV2(fichOrigenHTML, "."); ficheroOutOWL = entra3.getToken(1) + "_" + firma.toString() + ".owl"; lineaSalida = "<vistasemantica origen=\"" + fichOrigenLN + "\" destino=\"" + uri + "\" />"; lengNat = new FileInputStream(fichOrigenLN); lengNat2 = new BufferedInputStream(lengNat); entradaLenguajeNatural = new DataInputStream(lengNat2); salOWL = new FileWriter(ficheroOutOWL); salOWL2 = new BufferedWriter(salOWL); salidaOWL = new PrintWriter(salOWL2); while ((entradaInstancias = entradaLenguajeNatural.readLine()) != null) { sujeto = ""; verbo = ""; CD = ""; CI = ""; fraseOrigen = ""; if (entradaInstancias.trim().length() > 10) { entrada2 = new StringTokenV2(entradaInstancias.trim(), "\""); if (entrada2.isIncluidaSubcadena("<oracion sujeto=")) { sujeto = entrada2.getToken(2).trim(); verbo = entrada2.getToken(4).trim(); CD = entrada2.getToken(6).trim(); CI = entrada2.getToken(8).trim(); fraseOrigen = entrada2.getToken(10).trim(); if (sujeto.length() > 0 & verbo.length() > 0 & CD.length() > 0) { bandera = false; c = null; cBak = null; nombreClase = clasesOntologias.getClaseInstancia(CD); if (nombreClase.length() > 0) { bandera = true; } if (bandera) { if (incre == 0) { salidaOWL.write(" <rdf:RDF " + "\n"); salidaOWL.write(" xmlns:j.0=\"" + uriOntologia + "\"" + "\n"); salidaOWL.write(" xmlns:protege=\"http://protege.stanford.edu/plugins/owl/protege#\"" + "\n"); salidaOWL.write(" xmlns:rdf=\"http://www.w3.org/1999/02/22-rdf-syntax-ns#\"" + "\n"); salidaOWL.write(" xmlns:xsd=\"http://www.w3.org/2001/XMLSchema#\"" + "\n"); salidaOWL.write(" xmlns:rdfs=\"http://www.w3.org/2000/01/rdf-schema#\"" + "\n"); salidaOWL.write(" xmlns:owl=\"http://www.w3.org/2002/07/owl#\" " + "\n"); salidaOWL.write(" xmlns=\"" + uri + "#\"" + "\n"); salidaOWL.write(" xml:base=\"" + uri + "\">" + "\n"); salidaOWL.write(" <owl:Ontology rdf:about=\"\">" + "\n"); salidaOWL.write(" <owl:imports rdf:resource=\"" + uriOntologia + "\"/>" + "\n"); salidaOWL.write(" </owl:Ontology>" + "\n"); salidaOWL.flush(); salida.write(lineaSalida + "\n"); salida.flush(); incre = 1; } salidaOWL.write(" <j.0:" + nombreClase + " rdf:ID=\"" + sujeto.toUpperCase() + "\"/>" + "\n"); salidaOWL.write(" <owl:AllDifferent>" + "\n"); salidaOWL.write(" <owl:distinctMembers rdf:parseType=\"Collection\">" + "\n"); salidaOWL.write(" <" + nombreClase + " rdf:about=\"#" + sujeto.toUpperCase() + "\"/>" + "\n"); salidaOWL.write(" </owl:distinctMembers>" + "\n"); salidaOWL.write(" </owl:AllDifferent>" + "\n"); salidaOWL.flush(); bandera = false; } } } } } salidaOWL.write(" </rdf:RDF>" + "\n" + "\n"); salidaOWL.write("<!-- Creado por [html2ws] http://www.luis.criado.org -->" + "\n"); salidaOWL.flush(); } } mas = 1; } else { salida.write("</listaVistasSemanticas>\n"); salida.flush(); salida.close(); bw2.close(); fw2.close(); salidaOWL.close(); entradaFichero.close(); ent2.close(); ent1.close(); mas = -1; } } catch (Exception e) { mas = -2; salida.write("No se encuentra: " + fichOrigen + "\n"); salida.flush(); } return mas; } | 17,782 |
0 | public static String postRequest(String url, String content) throws IOException { InputStream is = null; ByteArrayOutputStream buf = new ByteArrayOutputStream(); String result = null; try { Object obj = openConnection(url, content, "POST", "text/xml"); if (obj instanceof InputStream) { is = (InputStream) obj; } else { return "Cannot open a connection with " + url + " : " + obj.toString(); } int c = is.read(); while (c != -1) { buf.write(c); c = is.read(); } result = new String(buf.toByteArray()); } finally { if (is != null) { is.close(); } if (buf != null) { buf.close(); } } return result; } | private void saveURL(URL url, String filename) throws IOException { URLConnection connection = url.openConnection(); connection.connect(); InputStreamReader ReadIn = new InputStreamReader(connection.getInputStream()); BufferedReader BufData = new BufferedReader(ReadIn); FileWriter FWriter = new FileWriter(filename); BufferedWriter BWriter = new BufferedWriter(FWriter); String urlData = null; while ((urlData = BufData.readLine()) != null) { BWriter.write(urlData); BWriter.newLine(); } BWriter.close(); } | 17,783 |
0 | public void run() { for (int i = 0; i < iClNumberOfCycles; i++) { try { long lStartTime = System.currentTimeMillis(); InputStream in = urlClDestinationURL.openStream(); byte buf[] = new byte[1024]; int num; while ((num = in.read(buf)) > 0) ; in.close(); long lStopTime = System.currentTimeMillis(); Node.getLogger().write((lStopTime - lStartTime) + " ms"); avgCalls.update(lStopTime - lStartTime); System.out.print("*"); System.out.flush(); calls.update(); } catch (Exception e) { cntErrors.update(); System.out.print("X"); System.out.flush(); } } } | public boolean check(Object credentials) { String password = (credentials instanceof String) ? (String) credentials : credentials.toString(); try { MessageDigest md = MessageDigest.getInstance("MD5"); byte[] ha1; if (credentials instanceof Credential.MD5) { ha1 = ((Credential.MD5) credentials).getDigest(); } else { md.update(username.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(realm.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(password.getBytes(StringUtil.__ISO_8859_1)); ha1 = md.digest(); } md.reset(); md.update(method.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(uri.getBytes(StringUtil.__ISO_8859_1)); byte[] ha2 = md.digest(); md.update(TypeUtil.toString(ha1, 16).getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(nonce.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(nc.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(cnonce.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(qop.getBytes(StringUtil.__ISO_8859_1)); md.update((byte) ':'); md.update(TypeUtil.toString(ha2, 16).getBytes(StringUtil.__ISO_8859_1)); byte[] digest = md.digest(); return (TypeUtil.toString(digest, 16).equalsIgnoreCase(response)); } catch (Exception e) { Log.warn(e); } return false; } | 17,784 |
0 | public static InputStream getResourceInputStream(final URL url) throws IOException { File file = url2file(url); if (file != null) { return new BufferedInputStream(new FileInputStream(file)); } if (!"jar".equalsIgnoreCase(url.getProtocol())) { return url.openStream(); } String urlStr = url.toExternalForm(); if (urlStr.endsWith("!/")) { throw new FileNotFoundException(url.toExternalForm()); } int p = urlStr.indexOf("!/"); if (p == -1) { throw new MalformedURLException(url.toExternalForm()); } String path = urlStr.substring(p + 2); file = url2file(new URL(urlStr.substring(4, p))); if (file == null) { return url.openStream(); } JarFile jarFile = new JarFile(file); try { ZipEntry entry = jarFile.getEntry(path); if (entry == null) { throw new FileNotFoundException(url.toExternalForm()); } InputStream in = jarFile.getInputStream(entry); try { ByteArrayOutputStream out = new ByteArrayOutputStream(); copyStream(in, out, 1024); return new ByteArrayInputStream(out.toByteArray()); } finally { in.close(); } } finally { jarFile.close(); } } | public static Dimension getJPEGDimension(String urls) throws IOException { URL url; Dimension d = null; try { url = new URL(urls); InputStream fis = url.openStream(); if (fis.read() != 255 || fis.read() != 216) throw new RuntimeException("SOI (Start Of Image) marker 0xff 0xd8 missing"); while (fis.read() == 255) { int marker = fis.read(); int len = fis.read() << 8 | fis.read(); if (marker == 192) { fis.skip(1); int height = fis.read() << 8 | fis.read(); int width = fis.read() << 8 | fis.read(); d = new Dimension(width, height); break; } fis.skip(len - 2); } fis.close(); } catch (MalformedURLException e) { e.printStackTrace(); } return d; } | 17,785 |
0 | private void prepareQueryResultData(ZipEntryRef zer, String nodeDir, String reportDir, Set<ZipEntryRef> statusZers) throws Exception { String jobDir = nodeDir + File.separator + "job_" + zer.getUri(); if (!WorkDirectory.isWorkingDirectoryValid(jobDir)) { throw new Exception("Cannot acces to " + jobDir); } File f = new File(jobDir + File.separator + "result.xml"); if (!f.exists() || !f.isFile() || !f.canRead()) { throw new Exception("Cannot acces to result file " + f.getAbsolutePath()); } String fcopyName = reportDir + File.separator + zer.getName() + ".xml"; BufferedInputStream bis = new BufferedInputStream(new FileInputStream(f)); BufferedOutputStream bos = new BufferedOutputStream(new FileOutputStream(fcopyName)); IOUtils.copy(bis, bos); bis.close(); bos.close(); zer.setUri(fcopyName); f = new File(jobDir + File.separator + "status.xml"); if (!f.exists() || !f.isFile() || !f.canRead()) { throw new Exception("Cannot acces to status file " + f.getAbsolutePath()); } fcopyName = reportDir + File.separator + zer.getName() + "_status.xml"; bis = new BufferedInputStream(new FileInputStream(f)); bos = new BufferedOutputStream(new FileOutputStream(fcopyName)); IOUtils.copy(bis, bos); bis.close(); bos.close(); statusZers.add(new ZipEntryRef(ZipEntryRef.SINGLE_FILE, zer.getName(), fcopyName, ZipEntryRef.WITH_REL)); } | private synchronized boolean saveU(URL url, String typeFlag, byte[] arrByte) { BufferedReader buffReader = null; BufferedOutputStream buffOS = null; URLConnection urlconnection = null; char flagChar = '0'; boolean flag = true; try { urlconnection = url.openConnection(); urlconnection.setDoOutput(true); urlconnection.setDoInput(true); urlconnection.setUseCaches(false); urlconnection.setRequestProperty("Content-type", "application/octet-stream"); buffOS = new BufferedOutputStream(urlconnection.getOutputStream()); buffOS.write((byte[]) typeFlag.getBytes()); buffOS.write(arrByte); buffOS.flush(); if (Config.DEBUG) System.out.println("Applet output file successfully! "); buffReader = new BufferedReader(new InputStreamReader(urlconnection.getInputStream())); StringBuffer stringBuff = new StringBuffer(); String serReturnMess = buffReader.readLine(); if (Config.DEBUG) System.out.println("Applet check status successfully! " + serReturnMess); flagChar = '2'; if (serReturnMess != null) { stringBuff.append(serReturnMess); serReturnMess = serReturnMess.substring(serReturnMess.indexOf(32)).trim() + '2'; flagChar = serReturnMess.charAt(0); } while ((serReturnMess = buffReader.readLine()) != null) { if (serReturnMess.length() <= 0) break; } } catch (Throwable e) { e.printStackTrace(); return false; } finally { try { if (buffOS != null) buffOS.close(); if (buffReader != null) buffReader.close(); } catch (Throwable e) { e.printStackTrace(); } if (flagChar == '2' || flagChar == '3') flag = true; else flag = false; } return flag; } | 17,786 |
0 | private void preprocessObjects(GeoObject[] objects) throws IOException { System.out.println("objects.length " + objects.length); for (int i = 0; i < objects.length; i++) { String fileName = objects[i].getPath(); int dotindex = fileName.lastIndexOf("."); dotindex = dotindex < 0 ? 0 : dotindex; String tmp = dotindex < 1 ? fileName : fileName.substring(0, dotindex + 3) + "w"; System.out.println("i: " + " world filename " + tmp); File worldFile = new File(tmp); if (worldFile.exists()) { BufferedReader worldFileReader = new BufferedReader(new InputStreamReader(new FileInputStream(worldFile))); if (staticDebugOn) debug("b4nextline: "); line = worldFileReader.readLine(); if (staticDebugOn) debug("line: " + line); if (line != null) { line = worldFileReader.readLine(); if (staticDebugOn) debug("line: " + line); tokenizer = new StringTokenizer(line, " \n\t\r\"", false); objects[i].setLon(Double.valueOf(tokenizer.nextToken()).doubleValue()); line = worldFileReader.readLine(); if (staticDebugOn) debug("line: " + line); tokenizer = new StringTokenizer(line, " \n\t\r\"", false); objects[i].setLat(Double.valueOf(tokenizer.nextToken()).doubleValue()); } } File file = new File(objects[i].getPath()); if (file.exists()) { System.out.println("object src file found "); int slashindex = fileName.lastIndexOf(java.io.File.separator); slashindex = slashindex < 0 ? 0 : slashindex; if (slashindex == 0) { slashindex = fileName.lastIndexOf("/"); slashindex = slashindex < 0 ? 0 : slashindex; } tmp = slashindex < 1 ? fileName : fileName.substring(slashindex + 1, fileName.length()); System.out.println("filename " + destinationDirectory + XPlat.fileSep + tmp); objects[i].setPath(tmp); file = new File(fileName); if (file.exists()) { DataInputStream dataIn = new DataInputStream(new BufferedInputStream(new FileInputStream(fileName))); DataOutputStream dataOut = new DataOutputStream(new BufferedOutputStream(new FileOutputStream(destinationDirectory + XPlat.fileSep + tmp))); System.out.println("copying to " + destinationDirectory + XPlat.fileSep + tmp); for (; ; ) { try { dataOut.writeShort(dataIn.readShort()); } catch (EOFException e) { break; } catch (IOException e) { break; } } dataOut.close(); } } } } | public void write(URL output, String model, String mainResourceClass) throws InfoUnitIOException { InfoUnitXMLData iur = new InfoUnitXMLData(STRUCTURE_RDF); rdf = iur.load("rdf"); rdfResource = rdf.ft("resource"); rdfParseType = rdf.ft("parse type"); try { PrintWriter outw = new PrintWriter(new OutputStreamWriter(new FileOutputStream(output.getFile()), "UTF-8")); URL urlModel = new URL(model); BufferedReader inr = new BufferedReader(new InputStreamReader(urlModel.openStream())); String finalTag = "</" + rdf.ft("main") + ">"; String line = inr.readLine(); while (line != null && !line.equalsIgnoreCase(finalTag)) { outw.println(line); line = inr.readLine(); } inr.close(); InfoNode nodeType = infoRoot.path(rdf.ft("constraint")); String type = null; if (nodeType != null) { type = nodeType.getValue().toString(); try { infoRoot.removeChildNode(nodeType); } catch (InvalidChildInfoNode error) { } } else if (mainResourceClass != null) type = mainResourceClass; else type = rdf.ft("description"); outw.println(" <" + type + " " + rdf.ft("about") + "=\"" + ((infoNamespaces == null) ? infoRoot.getLabel() : infoNamespaces.convertEntity(infoRoot.getLabel().toString())) + "\">"); Set<InfoNode> nl = infoRoot.getChildren(); writeNodeList(nl, outw, 5); outw.println(" </" + type + ">"); if (line != null) outw.println(finalTag); outw.close(); } catch (IOException error) { throw new InfoUnitIOException(error.getMessage()); } } | 17,787 |
1 | 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; } | public static void copy(final File src, File dst, final boolean overwrite) throws IOException, IllegalArgumentException { if (!src.isFile() || !src.exists()) { throw new IllegalArgumentException("Source file '" + src.getAbsolutePath() + "' not found!"); } if (dst.exists()) { if (dst.isDirectory()) { dst = new File(dst, src.getName()); } else if (dst.isFile()) { if (!overwrite) { throw new IllegalArgumentException("Destination file '" + dst.getAbsolutePath() + "' already exists!"); } } else { throw new IllegalArgumentException("Invalid destination object '" + dst.getAbsolutePath() + "'!"); } } final File dstParent = dst.getParentFile(); if (!dstParent.exists()) { if (!dstParent.mkdirs()) { throw new IOException("Failed to create directory " + dstParent.getAbsolutePath()); } } long fileSize = src.length(); if (fileSize > 20971520l) { final FileInputStream in = new FileInputStream(src); final FileOutputStream out = new FileOutputStream(dst); try { int doneCnt = -1; final int bufSize = 32768; final byte buf[] = new byte[bufSize]; while ((doneCnt = in.read(buf, 0, bufSize)) >= 0) { if (doneCnt == 0) { Thread.yield(); } else { out.write(buf, 0, doneCnt); } } out.flush(); } finally { try { in.close(); } catch (final IOException e) { } try { out.close(); } catch (final IOException e) { } } } else { final FileInputStream fis = new FileInputStream(src); final FileOutputStream fos = new FileOutputStream(dst); final FileChannel in = fis.getChannel(), out = fos.getChannel(); try { long offs = 0, doneCnt = 0; final long copyCnt = Math.min(65536, fileSize); do { doneCnt = in.transferTo(offs, copyCnt, out); offs += doneCnt; fileSize -= doneCnt; } while (fileSize > 0); } finally { try { in.close(); } catch (final IOException e) { } try { out.close(); } catch (final IOException e) { } try { fis.close(); } catch (final IOException e) { } try { fos.close(); } catch (final IOException e) { } } } } | 17,788 |
0 | public static Pedido insert(Pedido objPedido) { final Connection c = DBConnection.getConnection(); PreparedStatement pst = null; int result; if (c == null) { return null; } try { c.setAutoCommit(false); String sql = ""; int idPedido; idPedido = PedidoDAO.getLastCodigo(); if (idPedido < 1) { return null; } sql = "insert into pedido " + "(id_pedido, id_funcionario,data_pedido,valor) " + "values(?,?,now(),truncate(?,2))"; pst = c.prepareStatement(sql); pst.setInt(1, idPedido); pst.setInt(2, objPedido.getFuncionario().getCodigo()); pst.setString(3, new DecimalFormat("#0.00").format(objPedido.getValor())); result = pst.executeUpdate(); pst = null; if (result > 0) { Iterator<ItemPedido> itItemPedido = (objPedido.getItemPedido()).iterator(); while ((itItemPedido != null) && (itItemPedido.hasNext())) { ItemPedido objItemPedido = (ItemPedido) itItemPedido.next(); sql = ""; sql = "insert into item_pedido " + "(id_pedido,id_produto,quantidade,subtotal) " + "values (?,?,?,truncate(?,2))"; pst = c.prepareStatement(sql); pst.setInt(1, idPedido); pst.setInt(2, (objItemPedido.getProduto()).getCodigo()); pst.setInt(3, objItemPedido.getQuantidade()); pst.setString(4, new DecimalFormat("#0.00").format(objItemPedido.getSubtotal())); result = pst.executeUpdate(); } } pst = null; sql = ""; sql = "insert into pedido_situacao " + "(id_pedido,id_situacao, em, observacao, id_funcionario) " + "values (?,?,now(), ?, ?)"; pst = c.prepareStatement(sql); pst.setInt(1, idPedido); pst.setInt(2, 1); pst.setString(3, "Inclus�o de pedido"); pst.setInt(4, objPedido.getFuncionario().getCodigo()); result = pst.executeUpdate(); pst = null; sql = ""; sql = "insert into tramitacao " + "(data_tramitacao, id_pedido, id_dep_origem, id_dep_destino) " + "values (now(),?,?, ?)"; pst = c.prepareStatement(sql); pst.setInt(1, idPedido); pst.setInt(2, 6); pst.setInt(3, 2); result = pst.executeUpdate(); c.commit(); objPedido.setCodigo(idPedido); } catch (final Exception e) { try { c.rollback(); } catch (final Exception e1) { System.out.println("[PedidoDAO.insert] Erro ao inserir -> " + e1.getMessage()); } System.out.println("[PedidoDAO.insert] Erro ao inserir -> " + e.getMessage()); } finally { DBConnection.closePreparedStatement(pst); DBConnection.closeConnection(c); } return objPedido; } | public static boolean copyFile(String fromfile, String tofile) { File from = new File(fromfile); File to = new File(tofile); if (!from.exists()) return false; if (to.exists()) { log.error(tofile + "exists already"); return false; } BufferedInputStream in = null; BufferedOutputStream out = null; FileInputStream fis = null; FileOutputStream ois = null; boolean flag = true; try { to.createNewFile(); fis = new FileInputStream(from); ois = new FileOutputStream(to); in = new BufferedInputStream(fis); out = new BufferedOutputStream(ois); byte[] buf = new byte[2048]; int readBytes = 0; while ((readBytes = in.read(buf, 0, buf.length)) != -1) { out.write(buf, 0, readBytes); } } catch (IOException e) { log.error(e); flag = false; } finally { try { if (in != null) in.close(); if (out != null) out.close(); } catch (IOException e) { log.error(e); flag = false; } } return flag; } | 17,789 |
1 | 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); } } | public boolean validateLogin(String username, String password) { boolean user_exists = false; try { MessageDigest md5 = MessageDigest.getInstance("MD5"); md5.update(password.getBytes()); BigInteger hash = new BigInteger(1, md5.digest()); String password_hash = hash.toString(16); statement = connect.prepareStatement("SELECT id from toepen.users WHERE username = ? AND password = ?"); statement.setString(1, username); statement.setString(2, password_hash); resultSet = statement.executeQuery(); while (resultSet.next()) { user_exists = true; } } catch (Exception ex) { System.out.println(ex); } finally { close(); return user_exists; } } | 17,790 |
1 | public static Properties parse() { try { String userHome = System.getProperty("user.home"); File dsigFolder = new File(userHome, ".dsig"); if (!dsigFolder.exists() && !dsigFolder.mkdir()) { throw new IOException("Could not create .dsig folder in user home directory"); } File settingsFile = new File(dsigFolder, "settings.properties"); if (!settingsFile.exists()) { InputStream is = UserHomeSettingsParser.class.getResourceAsStream("/defaultSettings.properties"); if (is != null) { IOUtils.copy(is, new FileOutputStream(settingsFile)); } } if (settingsFile.exists()) { Properties p = new Properties(); FileInputStream fis = new FileInputStream(settingsFile); p.load(fis); IOUtils.closeQuietly(fis); return p; } } catch (IOException e) { logger.warn("Error while initialize settings", e); } return null; } | public static void fastBackup(File file) { FileChannel in = null; FileChannel out = null; FileInputStream fin = null; FileOutputStream fout = null; try { in = (fin = new FileInputStream(file)).getChannel(); out = (fout = new FileOutputStream(file.getAbsolutePath() + ".bak")).getChannel(); in.transferTo(0, in.size(), out); } catch (IOException e) { Logging.getErrorLog().reportError("Fast backup failure (" + file.getAbsolutePath() + "): " + e.getMessage()); } finally { if (fin != null) { try { fin.close(); } catch (IOException e) { Logging.getErrorLog().reportException("Failed to close file input stream", e); } } if (fout != null) { try { fout.close(); } catch (IOException e) { Logging.getErrorLog().reportException("Failed to close file output stream", e); } } if (in != null) { try { in.close(); } catch (IOException e) { Logging.getErrorLog().reportException("Failed to close file channel", e); } } if (out != null) { try { out.close(); } catch (IOException e) { Logging.getErrorLog().reportException("Failed to close file channel", e); } } } } | 17,791 |
0 | private static byte[] gerarHash(String frase) { try { MessageDigest md = MessageDigest.getInstance("MD5"); md.update(frase.getBytes()); return md.digest(); } catch (Exception e) { return null; } } | public synchronized void readModels(URL url, XmiExtensionParser xmiExtensionParser) throws OpenException { LOG.info("======================================="); LOG.info("== READING MODEL " + url); try { InputSource source = new InputSource(new XmiInputStream(url.openStream(), xmiExtensionParser, 100000, null)); source.setSystemId(url.toString()); readModels(source); } catch (IOException ex) { throw new OpenException(ex); } } | 17,792 |
1 | public static void copyFile(File oldPathFile, File newPathFile) throws IOException { InputStream in = null; OutputStream out = null; try { in = new BufferedInputStream(new FileInputStream(oldPathFile)); out = new BufferedOutputStream(new FileOutputStream(newPathFile)); int bufferSize = 1024; byte[] buffer = new byte[bufferSize]; while (in.read(buffer) > 0) out.write(buffer); } finally { if (null != in) in.close(); if (null != out) out.close(); } } | public static File copyFile(String path) { File src = new File(path); File dest = new File(src.getName()); try { if (!dest.exists()) { dest.createNewFile(); } FileChannel source = new FileInputStream(src).getChannel(); FileChannel destination = new FileOutputStream(dest).getChannel(); destination.transferFrom(source, 0, source.size()); source.close(); destination.close(); } catch (FileNotFoundException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } return dest; } | 17,793 |
1 | private static void zip(ZipOutputStream aOutputStream, final File[] aFiles, final String sArchive, final URI aRootURI, final String sFilter) throws FileError { boolean closeStream = false; if (aOutputStream == null) try { aOutputStream = new ZipOutputStream(new FileOutputStream(sArchive)); closeStream = true; } catch (final FileNotFoundException e) { throw new FileError("Can't create ODF file!", e); } try { try { for (final File curFile : aFiles) { aOutputStream.putNextEntry(new ZipEntry(URLDecoder.decode(aRootURI.relativize(curFile.toURI()).toASCIIString(), "UTF-8"))); if (curFile.isDirectory()) { aOutputStream.closeEntry(); FileUtils.zip(aOutputStream, FileUtils.getFiles(curFile, sFilter), sArchive, aRootURI, sFilter); continue; } final FileInputStream inputStream = new FileInputStream(curFile); for (int i; (i = inputStream.read(FileUtils.BUFFER)) != -1; ) aOutputStream.write(FileUtils.BUFFER, 0, i); inputStream.close(); aOutputStream.closeEntry(); } } finally { if (closeStream && aOutputStream != null) aOutputStream.close(); } } catch (final IOException e) { throw new FileError("Can't zip file to archive!", e); } if (closeStream) DocumentController.getStaticLogger().fine(aFiles.length + " files and folders zipped as " + sArchive); } | public void merge(VMImage image, VMSnapShot another) throws VMException { if (path == null || another.getPath() == null) throw new VMException("EmuVMSnapShot is NULL!"); logging.debug(LOG_NAME, "merge images " + path + " and " + another.getPath()); File target = new File(path); File src = new File(another.getPath()); if (target.isDirectory() || src.isDirectory()) return; try { FileInputStream in = new FileInputStream(another.getPath()); FileChannel inChannel = in.getChannel(); FileOutputStream out = new FileOutputStream(path, true); FileChannel outChannel = out.getChannel(); outChannel.transferFrom(inChannel, 0, inChannel.size()); outChannel.close(); inChannel.close(); } catch (IOException e) { throw new VMException(e); } } | 17,794 |
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!"); } | private void copy(File srouceFile, File destinationFile) throws IOException { FileChannel sourceChannel = new FileInputStream(srouceFile).getChannel(); FileChannel destinationChannel = new FileOutputStream(destinationFile).getChannel(); destinationChannel.transferFrom(sourceChannel, 0, sourceChannel.size()); sourceChannel.close(); destinationChannel.close(); } | 17,795 |
1 | public static void CreateBackupOfDataFile(String _src, String _dest) { try { File src = new File(_src); File dest = new File(_dest); if (new File(_src).exists()) { BufferedOutputStream out = new BufferedOutputStream(new FileOutputStream(dest)); BufferedInputStream in = new BufferedInputStream(new FileInputStream(src)); byte[] read = new byte[128]; int len = 128; while ((len = in.read(read)) > 0) out.write(read, 0, len); out.flush(); out.close(); in.close(); } } catch (IOException e) { e.printStackTrace(); } } | public static void copyFile(String sourceFilePath, String destFilePath) throws IOException { FileChannel in = null; FileChannel out = null; try { in = new FileInputStream(sourceFilePath).getChannel(); out = new FileOutputStream(destFilePath).getChannel(); long inputSize = in.size(); in.transferTo(0, inputSize, out); MappedByteBuffer buf = in.map(FileChannel.MapMode.READ_ONLY, 0, inputSize); out.write(buf); } finally { if (in != null) in.close(); if (out != null) out.close(); } } | 17,796 |
1 | public static void copyFromTo(String src, String des) { staticprintln("Copying:\"" + src + "\"\nto:\"" + des + "\""); try { FileChannel srcChannel = new FileInputStream(src).getChannel(); FileChannel dstChannel = new FileOutputStream(des).getChannel(); dstChannel.transferFrom(srcChannel, 0, srcChannel.size()); srcChannel.close(); dstChannel.close(); } catch (IOException e) { } } | public void writeFile(OutputStream outputStream) throws IOException { InputStream inputStream = null; if (file != null) { try { inputStream = new FileInputStream(file); IOUtils.copy(inputStream, outputStream); } finally { if (inputStream != null) { IOUtils.closeQuietly(inputStream); } } } } | 17,797 |
1 | public void updateCoordinates(Address address) { String mapURL = "http://maps.google.com/maps/geo?output=csv"; String mapKey = "ABQIAAAAi__aT6y6l86JjbootR-p9xQd1nlEHNeAVGWQhS84yIVN5yGO2RQQPg9QLzy82PFlCzXtMNe6ofKjnA"; String location = address.getStreet() + " " + address.getZip() + " " + address.getCity(); if (logger.isDebugEnabled()) { logger.debug(location); } double[] coordinates = { 0.0, 0.0 }; String content = ""; try { location = URLEncoder.encode(location, "UTF-8"); String request = mapURL + "&q=" + location + "&key=" + mapKey; URL url = new URL(request); BufferedReader reader = new BufferedReader(new InputStreamReader(url.openStream())); String line; while ((line = reader.readLine()) != null) { content += line; } reader.close(); } catch (Exception e) { if (logger.isDebugEnabled()) { logger.debug("Error from google: " + e.getMessage()); } } if (logger.isDebugEnabled()) { logger.debug(content); } StringTokenizer tokenizer = new StringTokenizer(content, ","); int i = 0; while (tokenizer.hasMoreTokens()) { i++; String token = tokenizer.nextToken(); if (i == 3) { coordinates[0] = Double.parseDouble(token); } if (i == 4) { coordinates[1] = Double.parseDouble(token); } } if ((coordinates[0] != 0) || (coordinates[1] != 0)) { address.setLatitude(coordinates[0]); address.setLongitude(coordinates[1]); } else { if (logger.isDebugEnabled()) { logger.debug("Invalid coordinates for address " + address.getId()); } } } | private ArrayList<Stock> fetchStockData(Stock[] stocks) throws IOException { Log.d(TAG, "Fetching stock data from Yahoo"); ArrayList<Stock> newStocks = new ArrayList<Stock>(stocks.length); if (stocks.length > 0) { StringBuilder sb = new StringBuilder(); for (Stock stock : stocks) { sb.append(stock.getSymbol()); sb.append('+'); } sb.deleteCharAt(sb.length() - 1); String urlStr = "http://finance.yahoo.com/d/quotes.csv?f=sb2n&s=" + sb.toString(); HttpClient client = new DefaultHttpClient(); HttpGet request = new HttpGet(urlStr.toString()); HttpResponse response = client.execute(request); BufferedReader reader = new BufferedReader(new InputStreamReader(response.getEntity().getContent())); String line = reader.readLine(); int i = 0; Log.d(TAG, "Parsing stock data from Yahoo"); while (line != null) { Log.d(TAG, "Parsing: " + line); String[] values = line.split(","); Stock stock = new Stock(stocks[i], stocks[i].getId()); stock.setCurrentPrice(Double.parseDouble(values[1])); stock.setName(values[2]); Log.d(TAG, "Parsed Stock: " + stock); newStocks.add(stock); line = reader.readLine(); i++; } } return newStocks; } | 17,798 |
1 | public void write(HttpServletRequest req, HttpServletResponse res, Object bean) throws IntrospectionException, IllegalAccessException, NoSuchMethodException, InvocationTargetException, IOException { res.setContentType(contentType); final Object r; if (HttpRpcServer.HttpRpcOutput.class.isAssignableFrom(bean.getClass())) { HttpRpcServer.HttpRpcOutput output = (HttpRpcServer.HttpRpcOutput) bean; r = output.getResult(); } else r = bean; if (r != null) { final ServletOutputStream outputStream = res.getOutputStream(); if (File.class.isAssignableFrom(r.getClass())) { File file = (File) r; InputStream in = null; try { in = new FileInputStream(file); IOUtils.copy(in, outputStream); } finally { if (in != null) in.close(); } } else if (InputStream.class.isAssignableFrom(r.getClass())) { InputStream in = null; try { in = (InputStream) r; if (ByteArrayInputStream.class.isAssignableFrom(r.getClass())) res.addHeader("Content-Length", Integer.toString(in.available())); IOUtils.copy(in, outputStream); } finally { if (in != null) in.close(); } } outputStream.flush(); } } | public static File writeInternalFile(Context cx, URL url, String dir, String filename) { FileOutputStream fos = null; File fi = null; try { fi = newInternalFile(cx, dir, filename); fos = FileUtils.openOutputStream(fi); int length = IOUtils.copy(url.openStream(), fos); log(length + " bytes copyed."); } catch (IOException e) { AIOUtils.log("", e); } finally { try { fos.close(); } catch (IOException e) { AIOUtils.log("", e); } } return fi; } | 17,799 |
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