List of usage examples for java.security DigestInputStream read
public int read(byte b[]) throws IOException
b.length bytes of data from this input stream into an array of bytes. From source file:uk.ac.ebi.jmzml.xml.io.MzMLUnmarshaller.java
/** * Calcultes the check sum.//w w w .j av a 2 s.c o m * * @return the check sum as hexidecimal */ private String calculateChecksum() { // we have to create the checksum for the mzML file (from its beginning to the // end of the fileChecksum start tag). // Since this stop location is very near the end of the file, we skip everything // until we come within a certain limit of the end of the file long limit = mzMLFile.length() - 200L; logger.debug("Looking for fileChecksum tag between byte " + limit + " and byte " + mzMLFile.length() + " (the end) of the mzML file."); // initialize the hash algorithm MessageDigest hash; try { hash = MessageDigest.getInstance("SHA-1"); } catch (NoSuchAlgorithmException e) { throw new IllegalStateException("SHA-1 not recognized as Secure Hash Algorithm.", e); } // create the input stream that will calculate the checksum FileInputStream fis; try { fis = new FileInputStream(mzMLFile); } catch (FileNotFoundException e) { throw new IllegalStateException("File " + mzMLFile.getAbsoluteFile() + " could not be found!", e); } BufferedInputStream bis = new BufferedInputStream(fis); DigestInputStream dis = new DigestInputStream(bis, hash); // prepare for input stream processing // we read through the file until we reach a specified limit before the end of the file // from there we populate a buffer with the read bytes (characters) and check if we have // already reached the position up to where we have to calculate the hash. CircularFifoBuffer bBuf = new CircularFifoBuffer(15); long cnt = 0; // counter to keep track of our position byte[] b = new byte[1]; // we only read one byte at a time try { while (dis.read(b) >= 0) { bBuf.add(b[0]); cnt++; // check if we have already reached the last bit of the file, where we have // to find the right position to stop (after the 'fileChecksum' start tag) if (cnt > limit) { // we should have reached the start of the <fileChecksum> tag, // now we have to find the end String readBuffer = convert2String(bBuf); if (readBuffer.endsWith("<fileChecksum>")) { // we have found the end of the fileChecksum start tag, we have to stop the hash if (b[0] != '>') { // check that we are really at the last character of the tag throw new IllegalStateException("We are not at the end of <fileChecksum> tag!"); } break; } } // else if not yet near the end of the file, just keep on going } dis.close(); } catch (IOException e) { throw new IllegalStateException( "Could not read from file '" + mzMLFile.getAbsolutePath() + "' while trying ot calculate hash.", e); } logger.debug("Read over " + cnt + " bytes while calculating the file hash."); byte[] bytesDigest = dis.getMessageDigest().digest(); return asHex(bytesDigest); }
From source file:org.calrissian.mango.jms.stream.AbstractJmsFileTransferSupport.java
@SuppressWarnings("unchecked") public void sendStream(Request req, final Destination replyTo) throws IOException { DigestInputStream is; Assert.notNull(req, "Request cannot be null"); final URI downloadUrl; try {/*www .j a v a2 s . c o m*/ downloadUrl = new URI(req.getDownloadUri()); } catch (URISyntaxException e) { throw new IOException(e); } try { is = new DigestInputStream(new BufferedInputStream(streamOpener.openStream(downloadUrl)), MessageDigest.getInstance(getHashAlgorithm())); } catch (NoSuchAlgorithmException e) { throw new JmsFileTransferException(e); } catch (Throwable e) { logger.info("Error occurred opening stream: " + e); return; } MessageQueueListener queueListener = null; try { @SuppressWarnings("rawtypes") Message returnMessage = (Message) jmsTemplate.execute(new SessionCallback() { @Override public Object doInJms(Session session) throws JMSException { DestinationRequestor requestor = null; try { Message responseMessage = DomainMessageUtils.toResponseMessage(session, new Response(ResponseStatusEnum.ACCEPT)); // Actual file transfer should be done on a queue. // Topics will not work Destination streamTransferDestination = factoryDestination(session, UUID.randomUUID().toString()); requestor = new DestinationRequestor(session, replyTo, streamTransferDestination, jmsTemplate.getReceiveTimeout()); Message returnMessage = requestor.request(responseMessage); requestor.close(); return returnMessage; } finally { if (requestor != null) requestor.close(); } } }, true); // timeout if (returnMessage == null) return; Response response = DomainMessageUtils.fromResponseMessage(returnMessage); // cancel transfer if (!ResponseStatusEnum.STARTSEND.equals(response.getStatus())) return; final Destination receiveAckDestination = returnMessage.getJMSDestination(); final Destination sendDataDestination = returnMessage.getJMSReplyTo(); queueListener = new MessageQueueListener(this, receiveAckDestination); logger.info("Sender[" + req.getRequestId() + "]: Starting send to: " + sendDataDestination); byte[] buffer = new byte[getPieceSize()]; int read = is.read(buffer); long placeInFile = 0; while (read >= 0) { ByteArrayOutputStream stream = new ByteArrayOutputStream(); stream.write(buffer, 0, read); stream.close(); final byte[] pieceData = stream.toByteArray(); final Piece piece = new Piece(placeInFile, pieceData, getHashAlgorithm()); logger.info("Sender[" + req.getRequestId() + "]: Sending piece with position: " + piece.getPosition() + " Size of piece: " + pieceData.length); jmsTemplate.send(sendDataDestination, new MessageCreator() { @Override public Message createMessage(Session session) throws JMSException { return DomainMessageUtils.toPieceMessage(session, piece); } }); // Message ret = jmsTemplate.receive(receiveAckDestination); Message ret = queueListener.getMessageInQueue(); logger.info("Sender[" + req.getRequestId() + "]: Sent piece and got ack"); // no one on the other end any longer, timeout if (ret == null) return; Response res = DomainMessageUtils.fromResponseMessage(ret); // stop transfer if (ResponseStatusEnum.RESEND.equals(res.getStatus())) { // resend piece logger.info("Sender[" + req.getRequestId() + "]: Resending piece"); } else if (ResponseStatusEnum.DENY.equals(res.getStatus())) { return; } else { buffer = new byte[getPieceSize()]; placeInFile += read; read = is.read(buffer); } } logger.info("Sender[" + req.getRequestId() + "]: Sending stop send"); final DigestInputStream fiIs = is; jmsTemplate.send(sendDataDestination, new MessageCreator() { @Override public Message createMessage(Session session) throws JMSException { Response stopSendResponse = new Response(ResponseStatusEnum.STOPSEND); stopSendResponse.setHash(new String(fiIs.getMessageDigest().digest())); return DomainMessageUtils.toResponseMessage(session, stopSendResponse); } }); Message ackMessage = queueListener.getMessageInQueue(); Object fromMessage = DomainMessageUtils.fromMessage(ackMessage); if (fromMessage instanceof Response) { Response ackResponse = (Response) fromMessage; if (ResponseStatusEnum.RESEND.equals(ackResponse.getStatus())) { // TODO: resend the whole file } } } catch (Exception e) { throw new JmsFileTransferException(e); } finally { try { is.close(); } catch (IOException ignored) { } if (queueListener != null) queueListener.close(); } }
From source file:com.mobicage.rogerthat.plugins.messaging.BrandingMgr.java
private void extractJSEmbedding(final JSEmbeddingItemTO packet) throws BrandingFailureException, NoSuchAlgorithmException, FileNotFoundException, IOException { File brandingCache = getJSEmbeddingPacketFile(packet.name); if (!brandingCache.exists()) throw new BrandingFailureException("Javascript package not found!"); File jsRootDir = getJSEmbeddingRootDirectory(); if (!(jsRootDir.exists() || jsRootDir.mkdir())) throw new BrandingFailureException("Could not create private javascript dir!"); File jsPacketDir = getJSEmbeddingPacketDirectory(packet.name); if (jsPacketDir.exists() && !SystemUtils.deleteDir(jsPacketDir)) throw new BrandingFailureException("Could not delete existing javascript dir"); if (!jsPacketDir.mkdir()) throw new BrandingFailureException("Could not create javascript dir"); MessageDigest digester = MessageDigest.getInstance("SHA256"); DigestInputStream dis = new DigestInputStream(new BufferedInputStream(new FileInputStream(brandingCache)), digester);/*w w w. ja v a 2s . c om*/ try { ZipInputStream zis = new ZipInputStream(dis); try { byte data[] = new byte[BUFFER_SIZE]; ZipEntry entry; while ((entry = zis.getNextEntry()) != null) { L.d("Extracting: " + entry); int count = 0; if (entry.isDirectory()) { L.d("Skipping javascript dir " + entry.getName()); continue; } File destination = new File(jsPacketDir, entry.getName()); destination.getParentFile().mkdirs(); final OutputStream fos = new BufferedOutputStream(new FileOutputStream(destination), BUFFER_SIZE); try { while ((count = zis.read(data, 0, BUFFER_SIZE)) != -1) { fos.write(data, 0, count); } } finally { fos.close(); } } while (dis.read(data) >= 0) ; } finally { zis.close(); } } finally { dis.close(); } }
From source file:API.amazon.mws.feeds.service.MarketplaceWebServiceClient.java
/** * Calculate content MD5 header values for feeds stored on disk. *//* w w w . ja va 2 s .c o m*/ private String computeContentMD5HeaderValue(FileInputStream fis) throws IOException, NoSuchAlgorithmException { DigestInputStream dis = new DigestInputStream(fis, MessageDigest.getInstance("MD5")); byte[] buffer = new byte[8192]; while (dis.read(buffer) > 0) ; String md5Content = new String( org.apache.commons.codec.binary.Base64.encodeBase64(dis.getMessageDigest().digest())); // Effectively resets the stream to be beginning of the file via a FileChannel. fis.getChannel().position(0); return md5Content; }
From source file:com.mobicage.rogerthat.plugins.messaging.BrandingMgr.java
private BrandingResult extractBranding(final BrandedItem item, final File encryptedBrandingFile, final File tmpDecryptedBrandingFile, final File tmpBrandingDir) throws BrandingFailureException { try {//from ww w. java 2s .com L.i("Extracting " + tmpDecryptedBrandingFile + " (" + item.brandingKey + ")"); File brandingFile = new File(tmpBrandingDir, "branding.html"); File watermarkFile = null; Integer backgroundColor = null; Integer menuItemColor = null; ColorScheme scheme = ColorScheme.light; boolean showHeader = true; String contentType = null; boolean wakelockEnabled = false; ByteArrayOutputStream brandingBos = new ByteArrayOutputStream(); try { MessageDigest digester = MessageDigest.getInstance("SHA256"); DigestInputStream dis = new DigestInputStream( new BufferedInputStream(new FileInputStream(tmpDecryptedBrandingFile)), digester); try { ZipInputStream zis = new ZipInputStream(dis); try { byte data[] = new byte[BUFFER_SIZE]; ZipEntry entry; while ((entry = zis.getNextEntry()) != null) { L.d("Extracting: " + entry); int count = 0; if (entry.getName().equals("branding.html")) { while ((count = zis.read(data, 0, BUFFER_SIZE)) != -1) { brandingBos.write(data, 0, count); } } else { if (entry.isDirectory()) { L.d("Skipping branding dir " + entry.getName()); continue; } File destination = new File(tmpBrandingDir, entry.getName()); destination.getParentFile().mkdirs(); if ("__watermark__".equals(entry.getName())) { watermarkFile = destination; } final OutputStream fos = new BufferedOutputStream(new FileOutputStream(destination), BUFFER_SIZE); try { while ((count = zis.read(data, 0, BUFFER_SIZE)) != -1) { fos.write(data, 0, count); } } finally { fos.close(); } } } while (dis.read(data) >= 0) ; } finally { zis.close(); } } finally { dis.close(); } String hexDigest = com.mobicage.rogerthat.util.TextUtils.toHex(digester.digest()); if (!hexDigest.equals(item.brandingKey)) { encryptedBrandingFile.delete(); SystemUtils.deleteDir(tmpBrandingDir); throw new BrandingFailureException("Branding cache was invalid!"); } brandingBos.flush(); byte[] brandingBytes = brandingBos.toByteArray(); if (brandingBytes.length == 0) { encryptedBrandingFile.delete(); SystemUtils.deleteDir(tmpBrandingDir); throw new BrandingFailureException("Invalid branding package!"); } String brandingHtml = new String(brandingBytes, "UTF8"); switch (item.type) { case BrandedItem.TYPE_MESSAGE: MessageTO message = (MessageTO) item.object; brandingHtml = brandingHtml.replace(NUNTIUZ_MESSAGE, TextUtils.htmlEncode(message.message).replace("\r", "").replace("\n", "<br>")); brandingHtml = brandingHtml.replace(NUNTIUZ_TIMESTAMP, TimeUtils.getDayTimeStr(mContext, message.timestamp * 1000)); FriendsPlugin friendsPlugin = mMainService.getPlugin(FriendsPlugin.class); brandingHtml = brandingHtml.replace(NUNTIUZ_IDENTITY_NAME, TextUtils.htmlEncode(friendsPlugin.getName(message.sender))); break; case BrandedItem.TYPE_FRIEND: FriendTO friend = (FriendTO) item.object; // In this case Friend is fully populated brandingHtml = brandingHtml.replace(NUNTIUZ_MESSAGE, TextUtils.htmlEncode(friend.description).replace("\r", "").replace("\n", "<br>")); brandingHtml = brandingHtml.replace(NUNTIUZ_IDENTITY_NAME, TextUtils.htmlEncode(friend.name)); break; case BrandedItem.TYPE_GENERIC: if (item.object instanceof FriendTO) { brandingHtml = brandingHtml.replace(NUNTIUZ_IDENTITY_NAME, TextUtils.htmlEncode(((FriendTO) item.object).name)); } break; } Matcher matcher = RegexPatterns.BRANDING_BACKGROUND_COLOR.matcher(brandingHtml); if (matcher.find()) { String bg = matcher.group(1); if (bg.length() == 4) { StringBuilder sb = new StringBuilder(); sb.append("#"); sb.append(bg.charAt(1)); sb.append(bg.charAt(1)); sb.append(bg.charAt(2)); sb.append(bg.charAt(2)); sb.append(bg.charAt(3)); sb.append(bg.charAt(3)); bg = sb.toString(); } backgroundColor = Color.parseColor(bg); } matcher = RegexPatterns.BRANDING_MENU_ITEM_COLOR.matcher(brandingHtml); if (matcher.find()) { String bg = matcher.group(1); if (bg.length() == 4) { StringBuilder sb = new StringBuilder(); sb.append("#"); sb.append(bg.charAt(1)); sb.append(bg.charAt(1)); sb.append(bg.charAt(2)); sb.append(bg.charAt(2)); sb.append(bg.charAt(3)); sb.append(bg.charAt(3)); bg = sb.toString(); } menuItemColor = Color.parseColor(bg); } matcher = RegexPatterns.BRANDING_COLOR_SCHEME.matcher(brandingHtml); if (matcher.find()) { String schemeStr = matcher.group(1); scheme = "dark".equalsIgnoreCase(schemeStr) ? ColorScheme.dark : ColorScheme.light; } matcher = RegexPatterns.BRANDING_SHOW_HEADER.matcher(brandingHtml); if (matcher.find()) { String showHeaderStr = matcher.group(1); showHeader = "true".equalsIgnoreCase(showHeaderStr); } matcher = RegexPatterns.BRANDING_CONTENT_TYPE.matcher(brandingHtml); if (matcher.find()) { String contentTypeStr = matcher.group(1); L.i("Branding content-type: " + contentTypeStr); if (AttachmentViewerActivity.CONTENT_TYPE_PDF.equalsIgnoreCase(contentTypeStr)) { File tmpBrandingFile = new File(tmpBrandingDir, "embed.pdf"); if (tmpBrandingFile.exists()) { contentType = AttachmentViewerActivity.CONTENT_TYPE_PDF; } } } Dimension dimension1 = null; Dimension dimension2 = null; matcher = RegexPatterns.BRANDING_DIMENSIONS.matcher(brandingHtml); if (matcher.find()) { String dimensionsStr = matcher.group(1); L.i("Branding dimensions: " + dimensionsStr); String[] dimensions = dimensionsStr.split(","); try { dimension1 = new Dimension(Integer.parseInt(dimensions[0]), Integer.parseInt(dimensions[1])); dimension2 = new Dimension(Integer.parseInt(dimensions[2]), Integer.parseInt(dimensions[3])); } catch (Exception e) { L.bug("Invalid branding dimension: " + matcher.group(), e); } } matcher = RegexPatterns.BRANDING_WAKELOCK_ENABLED.matcher(brandingHtml); if (matcher.find()) { String wakelockEnabledStr = matcher.group(1); wakelockEnabled = "true".equalsIgnoreCase(wakelockEnabledStr); } final List<String> externalUrlPatterns = new ArrayList<String>(); matcher = RegexPatterns.BRANDING_EXTERNAL_URLS.matcher(brandingHtml); while (matcher.find()) { externalUrlPatterns.add(matcher.group(1)); } FileOutputStream fos = new FileOutputStream(brandingFile); try { fos.write(brandingHtml.getBytes("UTF8")); } finally { fos.close(); } if (contentType != null && AttachmentViewerActivity.CONTENT_TYPE_PDF.equalsIgnoreCase(contentType)) { brandingFile = new File(tmpBrandingDir, "embed.pdf"); } return new BrandingResult(tmpBrandingDir, brandingFile, watermarkFile, backgroundColor, menuItemColor, scheme, showHeader, dimension1, dimension2, contentType, wakelockEnabled, externalUrlPatterns); } finally { brandingBos.close(); } } catch (IOException e) { L.e(e); throw new BrandingFailureException("Error copying cached branded file to private space", e); } catch (NoSuchAlgorithmException e) { L.e(e); throw new BrandingFailureException("Cannot validate ", e); } }