List of usage examples for java.util Scanner hasNextLine
public boolean hasNextLine()
From source file:azkaban.jobtype.ReportalHiveRunner.java
@Override protected void runReportal() throws Exception { System.out.println("Reportal Hive: Setting up Hive"); HiveConf conf = new HiveConf(SessionState.class); if (System.getenv("HADOOP_TOKEN_FILE_LOCATION") != null) { conf.set("mapreduce.job.credentials.binary", System.getenv("HADOOP_TOKEN_FILE_LOCATION")); }/* w w w .j a va 2 s .c om*/ File tempTSVFile = new File("./temp.tsv"); OutputStream tsvTempOutputStream = new BoundedOutputStream( new BufferedOutputStream(new FileOutputStream(tempTSVFile)), outputCapacity); PrintStream logOut = System.out; // NOTE: It is critical to do this here so that log4j is reinitialized // before any of the other core hive classes are loaded // criccomini@linkedin.com: I disabled this because it appears to swallow // all future logging (even outside of hive). // SessionState.initHiveLog4j(); String orig = HiveConf.getVar(conf, HiveConf.ConfVars.HIVEAUXJARS); CliSessionState sessionState = new CliSessionState(conf); sessionState.in = System.in; sessionState.out = new PrintStream(tsvTempOutputStream, true, "UTF-8"); sessionState.err = new PrintStream(logOut, true, "UTF-8"); OptionsProcessor oproc = new OptionsProcessor(); // Feed in Hive Args String[] args = buildHiveArgs(); if (!oproc.process_stage1(args)) { throw new Exception("unable to parse options stage 1"); } if (!oproc.process_stage2(sessionState)) { throw new Exception("unable to parse options stage 2"); } // Set all properties specified via command line for (Map.Entry<Object, Object> item : sessionState.cmdProperties.entrySet()) { conf.set((String) item.getKey(), (String) item.getValue()); } SessionState.start(sessionState); String expanded = expandHiveAuxJarsPath(orig); if (orig == null || orig.equals(expanded)) { System.out.println("Hive aux jars variable not expanded"); } else { System.out.println("Expanded aux jars variable from [" + orig + "] to [" + expanded + "]"); HiveConf.setVar(conf, HiveConf.ConfVars.HIVEAUXJARS, expanded); } if (!ShimLoader.getHadoopShims().usesJobShell()) { // hadoop-20 and above - we need to augment classpath using hiveconf // components // see also: code in ExecDriver.java ClassLoader loader = conf.getClassLoader(); String auxJars = HiveConf.getVar(conf, HiveConf.ConfVars.HIVEAUXJARS); System.out.println("Got auxJars = " + auxJars); if (StringUtils.isNotBlank(auxJars)) { loader = Utilities.addToClassPath(loader, StringUtils.split(auxJars, ",")); } conf.setClassLoader(loader); Thread.currentThread().setContextClassLoader(loader); } CliDriver cli = new CliDriver(); int returnValue = 0; String prefix = ""; returnValue = cli.processLine("set hive.cli.print.header=true;"); String[] queries = jobQuery.split("\n"); for (String line : queries) { if (!prefix.isEmpty()) { prefix += '\n'; } if (line.trim().endsWith(";") && !line.trim().endsWith("\\;")) { line = prefix + line; line = injectVariables(line); System.out.println("Reportal Hive: Running Hive Query: " + line); System.out.println("Reportal Hive: HiveConf HIVEAUXJARS: " + HiveConf.getVar(conf, HiveConf.ConfVars.HIVEAUXJARS)); returnValue = cli.processLine(line); prefix = ""; } else { prefix = prefix + line; continue; } } tsvTempOutputStream.close(); // convert tsv to csv and write it do disk System.out.println("Reportal Hive: Converting output"); InputStream tsvTempInputStream = new BufferedInputStream(new FileInputStream(tempTSVFile)); Scanner rowScanner = new Scanner(tsvTempInputStream); PrintStream csvOutputStream = new PrintStream(outputStream); while (rowScanner.hasNextLine()) { String tsvLine = rowScanner.nextLine(); // strip all quotes, and then quote the columns csvOutputStream.println("\"" + tsvLine.replace("\"", "").replace("\t", "\",\"") + "\""); } rowScanner.close(); csvOutputStream.close(); // Flush the temp file out tempTSVFile.delete(); if (returnValue != 0) { throw new Exception("Hive query finished with a non zero return code"); } System.out.println("Reportal Hive: Ended successfully"); }
From source file:org.mskcc.cbio.cgds.scripts.drug.internal.PiHelperImporter.java
private void importDrugTargets() throws Exception { Scanner scanner = new Scanner(getDrugTargetsFile()); DaoGeneOptimized daoGeneOptimized = DaoGeneOptimized.getInstance(); DaoDrugInteraction daoDrugInteraction = DaoDrugInteraction.getInstance(); int lineNo = 0, saved = 0; while (scanner.hasNextLine()) { String line = scanner.nextLine(); if (line.startsWith("#")) continue; if ((++lineNo) == 1) continue; String[] tokens = line.split(separator); assert tokens.length == 5; if (tokens.length < 5) continue; /*//from w ww.ja v a 2s .c o m 0 - PiHelperId 1 - Symbol 2 - Drug 3 - DataSources 4 - References */ String geneSymbol = tokens[1].trim(); String drugName = tokens[2].trim(); String datasources = tokens[3].trim(); String refs = tokens[4].trim(); Drug drug = nameToDrugMap.get(drugName); assert drug != null; if (drug == DRUG_SKIP) continue; List<CanonicalGene> genes = daoGeneOptimized.guessGene(geneSymbol); for (CanonicalGene gene : genes) { daoDrugInteraction.addDrugInteraction(drug, gene, DRUG_INTERACTION_TYPE, datasources, "", refs); saved++; } } scanner.close(); log.info("Number of drug-targets imported: " + saved); }
From source file:com.inaetics.demonstrator.MainActivity.java
/** * Method called when QR-code scanner has been triggered and finished. * If a qr-code is scanned it will process the content. *///from w ww . j a v a 2s . c o m @Override protected void onActivityResult(int requestCode, int resultCode, Intent data) { IntentResult result = IntentIntegrator.parseActivityResult(requestCode, resultCode, data); if (result != null) { if (result.getContents() == null) { Toast.makeText(this, "Cancelled", Toast.LENGTH_LONG).show(); } else { String content = result.getContents(); try { new URL(content); // Is a url! download(content); } catch (MalformedURLException e) { //Not an url Scanner sc = new Scanner(content); boolean autostart = false; while (sc.hasNextLine()) { String[] keyValue = sc.nextLine().split("="); switch (keyValue[0]) { case "cosgi.auto.start.1": autostart = true; String startBundles = ""; Scanner bscan = new Scanner(keyValue[1]); while (bscan.hasNext()) { startBundles += model.getBundleLocation() + "/" + bscan.next() + " "; } bscan.close(); config.putProperty(keyValue[0], startBundles); break; case "deployment_admin_identification": config.putProperty(keyValue[0], keyValue[1] + "_" + model.getCpu_abi()); break; default: try { config.putProperty(keyValue[0], keyValue[1]); } catch (ArrayIndexOutOfBoundsException ex) { //Ignore property there is no key/value combination Log.e("Scanner", "couldn't scan: " + Arrays.toString(keyValue)); } } } sc.close(); if (autostart && !Celix.getInstance().isCelixRunning()) { Celix.getInstance().startFramework(config.getConfigPath()); } Toast.makeText(this, "Scanned QR", Toast.LENGTH_SHORT).show(); } } } }
From source file:com.ibm.iotf.sample.devicemgmt.device.RasPiFirmwareHandlerSample.java
private InstalStatus ParseInstallLog() throws FileNotFoundException { try {/* w w w .j ava2 s. c o m*/ File file = new File(INSTALL_LOG_FILE); Scanner scanner = new Scanner(file); while (scanner.hasNextLine()) { String line = scanner.nextLine(); if (line.contains(DEPENDENCY_ERROR_MSG)) { scanner.close(); return InstalStatus.DEPENDENCY_ERROR; } else if (line.contains(ERROR_MSG)) { scanner.close(); return InstalStatus.ERROR; } } scanner.close(); } catch (FileNotFoundException e) { throw e; } return InstalStatus.SUCCESS; }
From source file:com.joliciel.talismane.fr.TalismaneFrench.java
@Override public TransitionSystem getDefaultTransitionSystem() { TransitionSystem transitionSystem = this.getParserService().getArcEagerTransitionSystem(); InputStream inputStream = getInputStreamFromResource("talismaneDependencyLabels.txt"); Scanner scanner = new Scanner(inputStream, "UTF-8"); List<String> dependencyLabels = new ArrayList<String>(); while (scanner.hasNextLine()) { String dependencyLabel = scanner.nextLine(); if (!dependencyLabel.startsWith("#")) dependencyLabels.add(dependencyLabel); }//ww w .ja v a 2 s . co m transitionSystem.setDependencyLabels(dependencyLabels); return transitionSystem; }
From source file:org.apache.camel.processor.idempotent.FileIdempotentRepository.java
/** * Loads the given file store into the 1st level cache *//* ww w. j a v a 2 s. c o m*/ protected void loadStore() { if (LOG.isTraceEnabled()) { LOG.trace("Loading to 1st level cache from idempotent filestore: " + fileStore); } if (!fileStore.exists()) { return; } cache.clear(); Scanner scanner = null; try { scanner = new Scanner(fileStore); scanner.useDelimiter(STORE_DELIMITER); while (scanner.hasNextLine()) { String line = scanner.nextLine(); cache.put(line, line); } } catch (IOException e) { throw ObjectHelper.wrapRuntimeCamelException(e); } finally { if (scanner != null) { scanner.close(); } } if (LOG.isDebugEnabled()) { LOG.debug("Loaded " + cache.size() + " to the 1st level cache from idempotent filestore: " + fileStore); } }
From source file:com.pinterest.clusterservice.cm.AwsVmManager.java
private Map<String, String> transformUserDataToConfigMap(String clusterName, String userData) throws Exception { String userDataString = userData.replace(String.format(AWS_USERDATA_TEMPLATE, clusterName, clusterName), "");/*from w w w. j av a2 s . c o m*/ Map<String, String> resultMap = new HashMap<>(); if (userDataString.length() == 0) { return resultMap; } Scanner scanner = new Scanner(userDataString); while (scanner.hasNextLine()) { String line = scanner.nextLine(); List<String> config = Arrays.asList(line.split(": ")); if (config.size() == 2) { resultMap.put(config.get(0), config.get(1)); } } scanner.close(); return resultMap; }
From source file:com.joliciel.talismane.machineLearning.TextFileWordList.java
public TextFileWordList(File file) { try {// www.java 2 s. c o m this.name = file.getName(); Scanner scanner = new Scanner( new BufferedReader(new InputStreamReader(new FileInputStream(file), "UTF-8"))); int i = 1; String firstLine = scanner.nextLine(); if (!firstLine.equals("Type: WordList")) { throw new JolicielException("A word list file must start with \"Type: WordList\""); } while (scanner.hasNextLine()) { String line = scanner.nextLine(); if (line.length() > 0 && !line.startsWith("#")) { if (line.startsWith("Name: ")) { this.name = line.substring("Name: ".length()); i++; continue; } wordList.add(line); } i++; } } catch (IOException e) { LogUtils.logError(LOG, e); throw new RuntimeException(e); } }
From source file:org.apache.sling.testing.clients.SlingHttpResponse.java
/** * <p>For each regular expression, assert that at least one line of the response matches the expression</p> * <p>The regular expressions are automatically prefixed and suffixed with .* it order to partial-match the lines</p> * * @param regexp list of regular expressions * @throws AssertionError if the response content does not match one of the regexp *//*from www. j av a2s . c om*/ public void checkContentRegexp(String... regexp) throws ClientException { for (String expr : regexp) { final Pattern p = Pattern.compile(".*" + expr + ".*"); final Scanner scanner = new Scanner(this.getContent()); boolean matched = false; while (scanner.hasNextLine()) { String line = scanner.nextLine(); if (p.matcher(line).matches()) { matched = true; break; } } if (!matched) { throw new ClientException("Pattern " + p + " didn't match any line in content"); } } }
From source file:com.maxl.java.aips2xml.Aips2Xml.java
static void extractPackageInfo() { try {/*from ww w . j ava 2 s. c o m*/ long startTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.print("- Processing packages xls ... "); // Load Swissmedic xls file FileInputStream packages_file = new FileInputStream(FILE_PACKAGES_XLS); // Get workbook instance for XLS file (HSSF = Horrible SpreadSheet Format) HSSFWorkbook packages_workbook = new HSSFWorkbook(packages_file); // Get first sheet from workbook HSSFSheet packages_sheet = packages_workbook.getSheetAt(0); // Iterate through all rows of first sheet Iterator<Row> rowIterator = packages_sheet.iterator(); int num_rows = 0; while (rowIterator.hasNext()) { Row row = rowIterator.next(); if (num_rows > 3) { String swissmedic_no5 = ""; // SwissmedicNo5 registration number (5 digits) String sequence_name = ""; String package_id = ""; String swissmedic_no8 = ""; // SwissmedicNo8 = SwissmedicNo5 + Package id (8 digits) String heilmittel_code = ""; String package_size = ""; String package_unit = ""; String swissmedic_cat = ""; String application_area = ""; String public_price = ""; String exfactory_price = ""; String therapeutic_index = ""; String withdrawn_str = ""; String speciality_str = ""; String plimitation_str = ""; String add_info_str = ""; // Contains additional information separated by ; // 0: Zulassungsnnr, 1: Sequenz, 2: Sequenzname, 3: Zulassunginhaberin, 4: T-Nummer, 5: ATC-Code, 6: Heilmittelcode // 7: Erstzulassung Prparat, 8: Zulassungsdatum Sequenz, 9: Gltigkeitsdatum, 10: Verpackung, 11: Packungsgrsse // 12: Einheit, 13: Abgabekategorie, 14: Wirkstoff, 15: Zusammensetzung, 16: Anwendungsgebiet Prparat, 17: Anwendungsgebiet Sequenz swissmedic_no5 = getAnyValue(row.getCell(0)); // Swissmedic registration number (5 digits) sequence_name = getAnyValue(row.getCell(2)); // Sequence name heilmittel_code = getAnyValue(row.getCell(6)); package_size = getAnyValue(row.getCell(11)); package_unit = getAnyValue(row.getCell(12)); swissmedic_cat = getAnyValue(row.getCell(13)); application_area = getAnyValue(row.getCell(16)); if (row.getCell(10) != null) { package_id = getAnyValue(row.getCell(10)); swissmedic_no8 = swissmedic_no5 + package_id; // Fill in row ArrayList<String> pack = new ArrayList<String>(); pack.add(swissmedic_no5); // 0 pack.add(sequence_name); // 1 pack.add(heilmittel_code); // 2 pack.add(package_size); // 3 pack.add(package_unit); // 4 pack.add(swissmedic_cat); // 5 if (!application_area.isEmpty()) pack.add(application_area + " (Swissmedic)\n"); // 6 = swissmedic + bag else pack.add(""); pack.add(public_price); // 7 pack.add(exfactory_price); // 8 pack.add(therapeutic_index); // 9 pack.add(withdrawn_str); // 10 pack.add(speciality_str); // 11 pack.add(plimitation_str); // 12 pack.add(add_info_str); // 13 package_info.put(swissmedic_no8, pack); } } num_rows++; } long stopTime = System.currentTimeMillis(); if (SHOW_LOGS) { System.out.println( (package_info.size() + 1) + " packages in " + (stopTime - startTime) / 1000.0f + " sec"); } startTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.print("- Processing atc classes xls ... "); if (DB_LANGUAGE.equals("de")) { // Load ATC classes xls file FileInputStream atc_classes_file = new FileInputStream(FILE_ATC_CLASSES_XLS); // Get workbook instance for XLS file (HSSF = Horrible SpreadSheet Format) HSSFWorkbook atc_classes_workbook = new HSSFWorkbook(atc_classes_file); // Get first sheet from workbook HSSFSheet atc_classes_sheet = atc_classes_workbook.getSheetAt(1); // Iterate through all rows of first sheet rowIterator = atc_classes_sheet.iterator(); num_rows = 0; while (rowIterator.hasNext()) { Row row = rowIterator.next(); if (num_rows > 2) { String atc_code = ""; String atc_class = ""; if (row.getCell(0) != null) { atc_code = row.getCell(0).getStringCellValue().replaceAll("\\s", ""); } if (row.getCell(2) != null) { atc_class = row.getCell(2).getStringCellValue(); } // Build a full map atc code to atc class if (atc_code.length() > 0) { atc_map.put(atc_code, atc_class); } } num_rows++; } } else if (DB_LANGUAGE.equals("fr")) { // Load multilinguagl ATC classes txt file String atc_classes_multi = readFromFile(FILE_ATC_MULTI_LINGUAL_TXT); // Loop through all lines Scanner scanner = new Scanner(atc_classes_multi); while (scanner.hasNextLine()) { String line = scanner.nextLine(); List<String> atc_class = Arrays.asList(line.split(": ")); String atc_code = atc_class.get(0); String[] atc_classes_str = atc_class.get(1).split(";"); String atc_class_french = atc_classes_str[1].trim(); atc_map.put(atc_code, atc_class_french); } scanner.close(); } stopTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out .println((atc_map.size() + 1) + " classes in " + (stopTime - startTime) / 1000.0f + " sec"); // Load Refdata xml file File refdata_xml_file = null; if (DB_LANGUAGE.equals("de")) refdata_xml_file = new File(FILE_REFDATA_PHARMA_DE_XML); else if (DB_LANGUAGE.equals("fr")) refdata_xml_file = new File(FILE_REFDATA_PHARMA_FR_XML); else { System.err.println("ERROR: DB_LANGUAGE undefined"); System.exit(1); } FileInputStream refdata_fis = new FileInputStream(refdata_xml_file); startTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.print("- Unmarshalling Refdata Pharma " + DB_LANGUAGE + " ... "); JAXBContext context = JAXBContext.newInstance(Pharma.class); Unmarshaller um = context.createUnmarshaller(); Pharma refdataPharma = (Pharma) um.unmarshal(refdata_fis); List<Pharma.ITEM> pharma_list = refdataPharma.getItem(); String smno8; for (Pharma.ITEM pharma : pharma_list) { String ean_code = pharma.getGtin(); if (ean_code.length() == 13) { smno8 = ean_code.substring(4, 12); // Extract pharma corresponding to swissmedicno8 ArrayList<String> pi_row = package_info.get(smno8); // Replace sequence_name if (pi_row != null) { if (pharma.getAddscr().length() > 0) pi_row.set(1, pharma.getDscr() + ", " + pharma.getAddscr()); else pi_row.set(1, pharma.getDscr()); if (pharma.getStatus().equals("I")) { if (DB_LANGUAGE.equals("de")) pi_row.set(10, "a.H."); else if (DB_LANGUAGE.equals("fr")) pi_row.set(10, "p.c."); } } else { if (SHOW_ERRORS) System.err.println(">> Does not exist in BAG xls: " + smno8 + " (" + pharma.getDscr() + ", " + pharma.getAddscr() + ")"); } } else if (ean_code.length() < 13) { if (SHOW_ERRORS) System.err.println(">> EAN code too short: " + ean_code + ": " + pharma.getDscr()); } else if (ean_code.length() > 13) { if (SHOW_ERRORS) System.err.println(">> EAN code too long: " + ean_code + ": " + pharma.getDscr()); } } stopTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.println(pharma_list.size() + " medis in " + (stopTime - startTime) / 1000.0f + " sec"); // Load BAG xml file File bag_xml_file = new File(FILE_PREPARATIONS_XML); FileInputStream fis_bag = new FileInputStream(bag_xml_file); startTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.print("- Processing preparations xml ... "); context = JAXBContext.newInstance(Preparations.class); um = context.createUnmarshaller(); Preparations prepInfos = (Preparations) um.unmarshal(fis_bag); List<Preparations.Preparation> prep_list = prepInfos.getPreparations(); int num_preparations = 0; for (Preparations.Preparation prep : prep_list) { String swissmedicno5_str = prep.getSwissmedicNo5(); if (swissmedicno5_str != null) { String orggencode_str = ""; // "O", "G" or empty -> "" String flagSB20_str = ""; // "Y" -> 20% or "N" -> 10% if (prep.getOrgGenCode() != null) orggencode_str = prep.getOrgGenCode(); if (prep.getFlagSB20() != null) { flagSB20_str = prep.getFlagSB20(); if (flagSB20_str.equals("Y")) { if (DB_LANGUAGE.equals("de")) flagSB20_str = "SB 20%"; else if (DB_LANGUAGE.equals("fr")) flagSB20_str = "QP 20%"; } else if (flagSB20_str.equals("N")) { if (DB_LANGUAGE.equals("de")) flagSB20_str = "SB 10%"; else if (DB_LANGUAGE.equals("fr")) flagSB20_str = "QP 10%"; } else flagSB20_str = ""; } add_info_map.put(swissmedicno5_str, orggencode_str + ";" + flagSB20_str); } List<Preparation.Packs> packs_list = prep.getPacks(); for (Preparation.Packs packs : packs_list) { // Extract codes for therapeutic index / classification String bag_application = ""; String therapeutic_code = ""; List<Preparations.Preparation.ItCodes> itcode_list = prep.getItCodes(); for (Preparations.Preparation.ItCodes itc : itcode_list) { List<Preparations.Preparation.ItCodes.ItCode> code_list = itc.getItCode(); int index = 0; for (Preparations.Preparation.ItCodes.ItCode code : code_list) { if (index == 0) { if (DB_LANGUAGE.equals("de")) therapeutic_code = code.getDescriptionDe(); else if (DB_LANGUAGE.equals("fr")) therapeutic_code = code.getDescriptionFr(); } else { if (DB_LANGUAGE.equals("de")) bag_application = code.getDescriptionDe(); else if (DB_LANGUAGE.equals("fr")) bag_application = code.getDescriptionFr(); } index++; } } // Generate new package info List<Preparation.Packs.Pack> pack_list = packs.getPack(); for (Preparation.Packs.Pack pack : pack_list) { // Get SwissmedicNo8 and used it as a key to extract all the relevant package info String swissMedicNo8 = pack.getSwissmedicNo8(); ArrayList<String> pi_row = package_info.get(swissMedicNo8); // Preparation also in BAG xml file (we have a price) if (pi_row != null) { // Update Swissmedic catory if necessary ("N->A", Y->"A+") if (pack.getFlagNarcosis().equals("Y")) pi_row.set(5, pi_row.get(5) + "+"); // Extract point limitations List<Preparations.Preparation.Packs.Pack.PointLimitations> point_limits = pack .getPointLimitations(); for (Preparations.Preparation.Packs.Pack.PointLimitations limits : point_limits) { List<Preparations.Preparation.Packs.Pack.PointLimitations.PointLimitation> plimits_list = limits .getPointLimitation(); if (plimits_list.size() > 0) if (plimits_list.get(0) != null) pi_row.set(12, ", LIM" + plimits_list.get(0).getPoints() + ""); } // Extract exfactory and public prices List<Preparations.Preparation.Packs.Pack.Prices> price_list = pack.getPrices(); for (Preparations.Preparation.Packs.Pack.Prices price : price_list) { List<Preparations.Preparation.Packs.Pack.Prices.PublicPrice> public_price = price .getPublicPrice(); List<Preparations.Preparation.Packs.Pack.Prices.ExFactoryPrice> exfactory_price = price .getExFactoryPrice(); if (exfactory_price.size() > 0) { try { float f = Float.valueOf(exfactory_price.get(0).getPrice()); String ep = String.format("%.2f", f); pi_row.set(8, "CHF " + ep); } catch (NumberFormatException e) { if (SHOW_ERRORS) System.err.println("Number format exception (exfactory price): " + swissMedicNo8 + " (" + public_price.size() + ")"); } } if (public_price.size() > 0) { try { float f = Float.valueOf(public_price.get(0).getPrice()); String pp = String.format("%.2f", f); pi_row.set(7, "CHF " + pp); if (DB_LANGUAGE.equals("de")) pi_row.set(11, ", SL"); else if (DB_LANGUAGE.equals("fr")) pi_row.set(11, ", LS"); } catch (NumberFormatException e) { if (SHOW_ERRORS) System.err.println("Number format exception (public price): " + swissMedicNo8 + " (" + public_price.size() + ")"); } } // Add application area and therapeutic code if (!bag_application.isEmpty()) pi_row.set(6, pi_row.get(6) + bag_application + " (BAG)"); pi_row.set(9, therapeutic_code); } } } } num_preparations++; } stopTime = System.currentTimeMillis(); if (SHOW_LOGS) System.out.println( num_preparations + " preparations in " + (stopTime - startTime) / 1000.0f + " sec"); // Loop through all SwissmedicNo8 numbers for (Map.Entry<String, ArrayList<String>> entry : package_info.entrySet()) { String swissmedicno8 = entry.getKey(); ArrayList<String> pi_row = entry.getValue(); } } catch (FileNotFoundException e) { e.printStackTrace(); } catch (IOException e) { e.printStackTrace(); } catch (JAXBException e) { e.printStackTrace(); } }