Esempio n. 1
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  /** Faz as validações solicitadas no manual de integração */
  public String isValid() {

    if (getTpAmb() == null || getTpAmb().length() != 1) {
      return "Tipo de Ambiente inválido";
    }

    if (getcUF() == null || getcUF().length() != 2) {
      return "Código da UF inválido";
    }

    if (getAno() == null || getAno().length() != 2) {
      return "O Ano de inutilização é inválido";
    }

    if (getCNPJ() == null || getCNPJ().length() != 14) {
      return "CNPJ inválido";
    }

    if (getMod() == null || getMod().length() != 2 || !TextUtil.isNumber(getMod())) {
      return "Modelo da NF inválido";
    }

    if (getSerie() == null
        || getSerie().length() < 1
        || getSerie().length() > 3
        || !TextUtil.isNumber(getSerie())) {
      return "Série da NF inválida";
    }

    if (getnNFIni() == null
        || getnNFIni().length() < 1
        || getnNFIni().length() > 9
        || !NumberUtils.isNumber(getnNFIni())) {
      return "Número Inicial da NF para inutilização é inválido";
    }

    if (getnNFFin() == null
        || getnNFFin().length() < 1
        || getnNFFin().length() > 9
        || !NumberUtils.isNumber(getnNFFin())) {
      return "Número Final da NF para inutilização é inválido";
    }

    if (getxJust() == null || getxJust().length() < 15) {
      return "Justificativa deve ser maior que 15 caracteres";
    }

    if (Integer.parseInt(getnNFIni()) > Integer.parseInt(getnNFFin())) {
      return "Número Final da NF não pode ser menor que Número Inicial da NF";
    }

    setID();
    return null;
  } //	isValid
 @RequestMapping(value = "/find.html")
 public ModelAndView find(@RequestParam(value = "q", required = false) String q) {
   ModelAndView mav = new ModelAndView();
   mav.addObject("operation", "find");
   if (StringUtils.isEmpty(q)) {
     mav.setViewName("find");
     return mav;
   }
   try {
     if (NumberUtils.isNumber(q) && StringUtils.length(q) == 7) {
       return show(Integer.valueOf(q));
     } else {
       long startTs = System.currentTimeMillis();
       List<TConcept> concepts = nodeService.findConcepts(q);
       mav.addObject("concepts", concepts);
       long endTs = System.currentTimeMillis();
       mav.addObject("q", q);
       mav.addObject("elapsed", new Long(endTs - startTs));
     }
   } catch (Exception e) {
     mav.addObject("error", e.getMessage());
   }
   mav.setViewName("find");
   return mav;
 }
Esempio n. 3
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    @Override
    public boolean validate() {
      if (NumberUtils.isNumber(_textf.getText())) {
        return true;
      }

      return false;
    }
Esempio n. 4
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 /**
  * 对字符串进行混淆,字符串必须是有效整数数字
  *
  * @param id
  * @return
  */
 public static String chaos(String id) {
   if (StringUtils.isEmpty(id)) {
     return StringUtils.EMPTY;
   } else if (!NumberUtils.isNumber(id)) {
     return StringUtils.EMPTY;
   }
   return chaos(Long.valueOf(id));
 }
 /**
  * Returns the value as a {@link Double} value. The returned value will be <code>0</code> or
  * <code>1</code> if the {@link #value} is a boolean value. If {@link #value} can not be converted
  * into a number, a {@link NumberFormatException} is thrown.
  *
  * @return {@link #value} as {@link Double}
  */
 public double getValueAsDouble() {
   if (NumberUtils.isNumber(value)) {
     return NumberUtils.createDouble(value);
   }
   if (isBooleanValue(value)) {
     return BooleanUtils.toBoolean(value) ? 1 : 0;
   }
   throw new NumberFormatException();
 }
Esempio n. 6
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  private static Object initializeStringValue(final String value) {
    if (value == null) {
      throw new IllegalArgumentException("The left hand side value cannot be null");
    }

    if (NumberUtils.isNumber(value)) {
      return Integer.valueOf(value);
    }

    return value;
  }
Esempio n. 7
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  /**
   * 新增或更新用户月度活跃时长统计,返回执行结果
   *
   * @param uidList 月度活跃uid分页清单
   * @param millisList 对应用户在线时长list
   * @param monthStr 统计月度,yyyyMM
   * @return 执行结果
   */
  public boolean batchAddOrUpdateMAUStats(
      List<String> uidList, List<String> millisList, String monthStr) {
    if (uidList == null || millisList == null || uidList.isEmpty() || millisList.isEmpty()) {
      return false;
    }
    if (uidList.size() != millisList.size()) {
      return false;
    }
    int listSize = uidList.size();
    boolean result = false;
    Connection conn = null;
    PreparedStatement ps = null;
    String sql =
        "INSERT INTO `ssyh_main`.`mau_stats`"
            + "(`month_str`,`uid`,`stay_seconds`,`stay_minutes`,`stay_hours`) VALUES(?,?,?,?,?) "
            + "ON DUPLICATE KEY UPDATE `stay_seconds` = ?,`stay_minutes`=?,`stay_hours`=?;";
    try {
      conn = DBUtil.getConnection();
      // 关闭事务自动提交
      conn.setAutoCommit(false);
      ps = conn.prepareStatement(sql);

      for (int i = 0; i < listSize; i++) {
        String uid = uidList.get(i);
        String millisStr = millisList.get(i);
        long stayMillis = NumberUtils.isNumber(millisStr) ? Long.parseLong(millisStr) : 0L;
        MAUStatsBean bean = new MAUStatsBean(monthStr, uid, stayMillis);
        // insert参数
        ps.setString(1, bean.getMonthStr());
        ps.setString(2, bean.getUid());
        ps.setInt(3, bean.getStaySeconds());
        ps.setInt(4, bean.getStayMinutes());
        ps.setDouble(5, bean.getStayHours());
        // update参数
        ps.setInt(6, bean.getStaySeconds());
        ps.setInt(7, bean.getStayMinutes());
        ps.setDouble(8, bean.getStayHours());
        ps.addBatch();
      }
      ps.executeBatch();
      // 关闭事务自动提交
      conn.setAutoCommit(true);
      result = true;
    } catch (SQLException e) {
      result = false;
      logger.error("addOrUpdateMAUStats exception:" + e.getMessage(), e);
    } finally {
      DBUtil.close(null, ps, conn);
    }
    return result;
  }
 /* (non-Javadoc)
  * @see org.springframework.web.servlet.mvc.AbstractController#handleRequestInternal(javax.servlet.http.HttpServletRequest, javax.servlet.http.HttpServletResponse)
  */
 @Override
 protected ModelAndView handleRequestInternal(
     HttpServletRequest request, HttpServletResponse response) throws Exception {
   String query = request.getParameter("query");
   if (StringUtils.isBlank(query)) {
     return new ModelAndView(getSearchView());
   }
   String p = request.getParameter("p");
   int currentPage = 1;
   if (NumberUtils.isNumber(p)) {
     currentPage = Integer.parseInt(p);
   }
   if (currentPage < 1) {
     currentPage = 1;
   }
   CompassSearchCommand searchCommand = new CompassSearchCommand();
   searchCommand.setPage(new Integer(currentPage - 1));
   searchCommand.setQuery(query);
   ModelAndView mv = new ModelAndView();
   mv.addObject("query", query);
   mv.addObject("p", currentPage);
   List<String> errors = new ArrayList<String>();
   try {
     CompassSearchResults searchResults = searchHelper.search(searchCommand);
     List<CompassHitWapper> hits = new ArrayList<CompassHitWapper>();
     for (int i = 0; i < searchResults.getHits().length; i++) {
       CompassHitWapper hit = new CompassHitWapper(searchResults.getHits()[i]);
       hits.add(hit);
     }
     CompassSearchResultsWrapper results = new CompassSearchResultsWrapper(searchResults);
     results.setHits(hits);
     mv.addObject(getSearchResultsName(), results);
   } catch (SearchEngineQueryParseException ex) {
     errors.add(TextUtil.escapeHTML(ex.getMessage()));
     mv.addObject("errors", errors);
   } catch (Exception ex) {
     errors.add(TextUtil.escapeHTML(ex.getMessage()));
     mv.addObject("errors", errors);
   }
   mv.setViewName(getSearchResultsView());
   return mv;
 }
Esempio n. 9
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  // really an update
  public boolean saveSetting(Account account, String key, String value) throws ControllerException {
    // check if a search boost setting. hack: expecting that search boosts will only use numeric
    // values TODO
    if (NumberUtils.isNumber(value)) {
      try {
        SearchBoostField boostField = SearchBoostField.valueOf(key.toUpperCase());
        if (boostField != null) {
          key = "BOOST_" + boostField.name();
        }
      } catch (Exception e) {
        Logger.debug(e.getMessage());
      }
    }

    try {
      return dao.saveOrUpdatePreference(account, key, value) != null;
    } catch (DAOException e) {
      throw new ControllerException(e);
    }
  }
Esempio n. 10
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 /**
  * 修复地区名称为地区代码 (comInterview)
  *
  * @param page
  */
 public void fixComInterviewJobLocationToCode(Page<ComInterview> page) {
   if (page == null || CollectionUtils.isEmpty(page.getItems())) {
     return;
   }
   for (ComInterview comInterview : page.getItems()) {
     if (StringUtils.isNotBlank(comInterview.getJobLocation())) {
       List<Integer> jobLocationList = Lists.newArrayList();
       String[] jobLocationArr = comInterview.getJobLocation().split(",");
       for (String location : jobLocationArr) {
         Integer code = OptionMap.getCityCodeByAddr(location);
         if (code != null && code > 0 && !NumberUtils.isNumber(location)) {
           jobLocationList.add(code);
         }
       }
       if (CollectionUtils.isNotEmpty(jobLocationList)) {
         comInterview.setJobLocation(StringUtils.join(jobLocationList, ","));
       }
     }
   }
 }
  /** Ensures that all fields are set. */
  private void dialogChanged() {
    if (projectProviders == null) {
      setEnabled(false);
      updateStatus(Messages.error_new_project_metadata_not_found);
      return;
    }

    providerDescription.setText(
        projectProviders.get(providerName.getSelectionIndex()).getDescription());

    if (isDemo()) {
      if (!this.providerName.getText().equals(projectProviders.get(0).getDisplayName())) {
        this.providerName.setText(projectProviders.get(0).getDisplayName()); // AS/400
        setEnabled(false);
        updateStatus(null);
      }
      return;
    } else {
      setEnabled(true);
    }

    if (hostName.getText().length() == 0) {
      updateStatus(Messages.error_host_name_not_specified);
      return;
    }
    if (hostPort.getText().length() == 0) {
      updateStatus(Messages.errror_host_port_not_specified);
      return;
    }
    if (!NumberUtils.isNumber(hostPort.getText())) {
      updateStatus(Messages.error_port_not_numeric);
      return;
    }
    if (codePage.getText().length() == 0) {
      updateStatus(Messages.error_code_page_not_specified);
      return;
    }

    this.updateStatus(null);
  }
  /**
   * {@inheritDoc}
   *
   * @see
   *     org.kuali.kra.common.specialreview.service.SpecialReviewService#addProtocolFundingSourceForSpecialReview(java.lang.String,
   *     java.lang.String, java.lang.String, java.lang.String, java.lang.String)
   */
  public void addProtocolFundingSourceForSpecialReview(
      String protocolNumber,
      String fundingSourceNumber,
      String fundingSourceTypeCode,
      String fundingSourceName,
      String fundingSourceTitle) {

    Protocol protocol = getProtocolFinderDao().findCurrentProtocolByNumber(protocolNumber);
    if (protocol != null
        && StringUtils.isNotBlank(fundingSourceNumber)
        && NumberUtils.isNumber(fundingSourceTypeCode)) {
      ProtocolFundingSource protocolFundingSource = new ProtocolFundingSource();
      protocolFundingSource.setProtocolNumber(protocolNumber);
      protocolFundingSource.setFundingSourceNumber(fundingSourceNumber);
      protocolFundingSource.setFundingSourceTypeCode(fundingSourceTypeCode);
      protocolFundingSource.setFundingSourceName(fundingSourceName);
      protocolFundingSource.setFundingSourceTitle(fundingSourceTitle);
      protocol.getProtocolFundingSources().add(protocolFundingSource);

      getBusinessObjectService().save(protocol);
    }
  }
 public static boolean isNumber(List<String> args, int index) {
   return NumberUtils.isNumber(args.get(index));
 }
Esempio n. 14
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  /**
   * Determines the CSV parser setup from the first few lines. Also parses the next few lines,
   * tossing out comments and blank lines.
   *
   * <p>If the separator is GUESS_SEP, then it is guessed by looking at tokenization and column
   * count of the first few lines.
   *
   * <p>If ncols is -1, then it is guessed similarly to the separator.
   *
   * <p>singleQuotes is honored in all cases (and not guessed).
   */
  static ParseSetup guessSetup(
      byte[] bits,
      byte sep,
      int ncols,
      boolean singleQuotes,
      int checkHeader,
      String[] columnNames,
      byte[] columnTypes,
      String[][] naStrings) {

    String[] lines = getFirstLines(bits);
    if (lines.length == 0) throw new H2OParseSetupException("No data!");

    // Guess the separator, columns, & header
    String[] labels;
    final String[][] data = new String[lines.length][];
    if (lines.length == 1) { // Ummm??? Only 1 line?
      if (sep == GUESS_SEP) {
        if (lines[0].split(",").length > 2) sep = (byte) ',';
        else if (lines[0].split(" ").length > 2) sep = ' ';
        else { // one item, guess type
          data[0] = new String[] {lines[0]};
          byte[] ctypes = new byte[1];
          String[][] domains = new String[1][];
          if (NumberUtils.isNumber(data[0][0])) {
            ctypes[0] = Vec.T_NUM;
          } else { // non-numeric
            ValueString str = new ValueString(data[0][0]);
            if (ParseTime.isTime(str)) ctypes[0] = Vec.T_TIME;
            else if (ParseUUID.isUUID(str)) ctypes[0] = Vec.T_UUID;
            else { // give up and guess enum
              ctypes[0] = Vec.T_ENUM;
              domains[0] = new String[] {data[0][0]};
            }
          }
          // FIXME should set warning message and let fall through
          return new ParseSetup(
              ParserType.CSV,
              GUESS_SEP,
              singleQuotes,
              checkHeader,
              1,
              null,
              ctypes,
              domains,
              naStrings,
              data,
              FileVec.DFLT_CHUNK_SIZE);
        }
      }
      data[0] = determineTokens(lines[0], sep, singleQuotes);
      ncols = (ncols > 0) ? ncols : data[0].length;
      if (checkHeader == GUESS_HEADER) {
        if (ParseSetup.allStrings(data[0])) {
          labels = data[0];
          checkHeader = HAS_HEADER;
        } else {
          labels = null;
          checkHeader = NO_HEADER;
        }
      } else if (checkHeader == HAS_HEADER) labels = data[0];
      else labels = null;
    } else { // 2 or more lines

      // First guess the field separator by counting occurrences in first few lines
      if (sep == GUESS_SEP) { // first guess the separator
        sep = guessSeparator(lines[0], lines[1], singleQuotes);
        if (sep == GUESS_SEP && lines.length > 2) {
          sep = guessSeparator(lines[1], lines[2], singleQuotes);
          if (sep == GUESS_SEP) sep = guessSeparator(lines[0], lines[2], singleQuotes);
        }
        if (sep == GUESS_SEP) sep = (byte) ' '; // Bail out, go for space
      }

      // Tokenize the first few lines using the separator
      for (int i = 0; i < lines.length; ++i) data[i] = determineTokens(lines[i], sep, singleQuotes);
      // guess columns from tokenization
      ncols = guessNcols(columnNames, data);

      // Asked to check for a header, so see if 1st line looks header-ish
      if (checkHeader == HAS_HEADER
          || (checkHeader == GUESS_HEADER && ParseSetup.hasHeader(data[0], data[1]))) {
        checkHeader = HAS_HEADER;
        labels = data[0];
      } else {
        checkHeader = NO_HEADER;
        labels = columnNames;
      }

      // See if compatible headers
      if (columnNames != null && labels != null) {
        if (labels.length != columnNames.length)
          throw new H2OParseSetupException(
              "Already have "
                  + columnNames.length
                  + " column labels, but found "
                  + labels.length
                  + " in this file");
        else {
          for (int i = 0; i < labels.length; ++i)
            if (!labels[i].equalsIgnoreCase(columnNames[i])) {
              throw new H2OParseSetupException(
                  "Column "
                      + (i + 1)
                      + " label '"
                      + labels[i]
                      + "' does not match '"
                      + columnNames[i]
                      + "'");
            }
          labels = columnNames; // Keep prior case & count in any case
        }
      }
    }

    // Assemble the setup understood so far
    ParseSetup resSetup =
        new ParseSetup(
            ParserType.CSV,
            sep,
            singleQuotes,
            checkHeader,
            ncols,
            labels,
            null,
            null /*domains*/,
            naStrings,
            data);

    // now guess the types
    if (columnTypes == null || ncols != columnTypes.length) {
      InputStream is = new ByteArrayInputStream(bits);
      CsvParser p = new CsvParser(resSetup, null);
      PreviewParseWriter dout = new PreviewParseWriter(resSetup._number_columns);
      try {
        p.streamParse(is, dout);
        resSetup._column_previews = dout;
      } catch (Throwable e) {
        throw new RuntimeException(e);
      }
    } else {
      // If user sets column type as unknown/bad, guess numeric.
      for (int i = 0; i < columnTypes.length; i++)
        if (columnTypes[i] == Vec.T_BAD) columnTypes[i] = Vec.T_NUM;
      resSetup._column_types = columnTypes;
      resSetup._na_strings = null;
    }

    // Return the final setup
    return resSetup;
  }
  @Override
  public boolean performOk() {
    String txtResultType = comboRDBResultType.getText();
    String txtSelectLimit = textSelectLimit.getText();
    String txtResultPage = textResultPage.getText();
    String txtQueryTimtout = textQueryTimeout.getText();
    String txtOraclePlan = textOraclePlan.getText();
    String txtRDBNumberColumnIsComman = comboRDBNumberComma.getText();
    String txtFontInfo = lblUserFont.getText();
    String txtCommitCount = textCommitCount.getText();
    String txtShownInTheColumn = textShowInTheColumn.getText();

    if (!NumberUtils.isNumber(txtSelectLimit)) {
      MessageDialog.openError(
          getShell(),
          "Confirm",
          Messages.get().DefaultPreferencePage_0
              + Messages.get().RDBPreferencePage_0); // $NON-NLS-1$
      textSelectLimit.setFocus();
      return false;
    }

    if (!NumberUtils.isNumber(txtResultPage)) {
      MessageDialog.openError(
          getShell(),
          "Confirm",
          Messages.get().DefaultPreferencePage_other_labelText_1
              + Messages.get().RDBPreferencePage_0); // $NON-NLS-1$
      textResultPage.setFocus();
      return false;
    }

    if (!NumberUtils.isNumber(txtQueryTimtout)) {
      MessageDialog.openError(
          getShell(), "Confirm", "Query timeout is " + Messages.get().RDBPreferencePage_0);
      textQueryTimeout.setFocus();
      return false;
    }

    if (!NumberUtils.isNumber(txtCommitCount)) {
      MessageDialog.openError(
          getShell(), "Confirm", "Commit count is " + Messages.get().RDBPreferencePage_0);
      textCommitCount.setFocus();
      return false;
    }

    if ("".equals(txtOraclePlan)) { // $NON-NLS-1$
      MessageDialog.openError(
          getShell(), "Confirm", Messages.get().RDBPreferencePage_3); // $NON-NLS-1$
      return false;
    }

    if (!NumberUtils.isNumber(txtShownInTheColumn)) {
      MessageDialog.openError(getShell(), "Confirm", Messages.get().RDBPreferencePage_0);
      textShowInTheColumn.setFocus();
      return false;
    }

    // 테이블에 저장
    try {
      TadpoleSystem_UserInfoData.updateRDBUserInfoData(
          txtSelectLimit,
          txtResultPage,
          txtQueryTimtout,
          txtOraclePlan,
          txtRDBNumberColumnIsComman,
          txtFontInfo,
          txtCommitCount,
          txtShownInTheColumn,
          txtResultType);

      // session 데이터를 수정한다.
      SessionManager.setUserInfo(PreferenceDefine.RDB_RESULT_TYPE, txtResultType);
      SessionManager.setUserInfo(PreferenceDefine.SELECT_LIMIT_COUNT, txtSelectLimit);
      SessionManager.setUserInfo(PreferenceDefine.SELECT_RESULT_PAGE_PREFERENCE, txtResultPage);
      SessionManager.setUserInfo(PreferenceDefine.SELECT_QUERY_TIMEOUT, txtQueryTimtout);

      SessionManager.setUserInfo(PreferenceDefine.ORACLE_PLAN_TABLE, txtOraclePlan);
      SessionManager.setUserInfo(
          PreferenceDefine.RDB_RESULT_NUMBER_IS_COMMA, txtRDBNumberColumnIsComman);
      SessionManager.setUserInfo(PreferenceDefine.RDB_RESULT_FONT, txtFontInfo);
      SessionManager.setUserInfo(PreferenceDefine.RDB_COMMIT_COUNT, txtCommitCount);
      SessionManager.setUserInfo(
          PreferenceDefine.RDB_CHARACTER_SHOW_IN_THE_COLUMN, txtShownInTheColumn);

    } catch (Exception e) {
      logger.error("RDBPreference saveing", e);

      MessageDialog.openError(
          getShell(),
          "Confirm",
          Messages.get().RDBPreferencePage_5 + e.getMessage()); // $NON-NLS-1$
      return false;
    }

    return super.performOk();
  }
Esempio n. 16
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  private void doMain() throws SAXParseException, IOException {

    Normalizer normalizer = null;
    if (useTokenizer) {
      normalizer = Normalizer.getInstance();
    }

    PrintWriter reversedWordsWriter =
        analysisPlacesOut != null
            ? new PrintWriter(new File(analysisPlacesOut, "reversedWords.txt"))
            : new PrintWriter(System.out);

    BufferedReader bufferedReader = new BufferedReader(new FileReader(placesIn));

    int lineCount = 0;
    while (bufferedReader.ready()) {
      String nextLine = bufferedReader.readLine();
      nextLine = nextLine.trim().toLowerCase();
      if (nextLine.length() == 0) continue;

      lineCount++;
      if (lineCount % 5000 == 0) System.out.println("indexing line " + lineCount);

      placesCountCC.add(nextLine);
      totalPlacesCount++;

      String[] placeList = nextLine.split(SPLIT_REGEX);

      for (String place : placeList) {
        place = place.trim();

        if (place.length() == 0) continue;

        if (NumberUtils.isNumber(place)) {
          numbersCountCC.add(place);
          totalNumbersCount++;
        } else {
          wordsCountCC.add(place);
          totalWordsCount++;
        }
      }

      int lastCommaIndx = nextLine.lastIndexOf(",");
      String lastWord = nextLine.substring(lastCommaIndx + 1).trim();
      if (lastWord.length() > 0) {
        endingsOfPlacesCC.add(lastWord);
        endingsOfPlacesTotalCount++;
      }

      if (lineCount % REVERSE_EVERY_N == 0) {
        StringBuilder reversedWord = new StringBuilder(nextLine);
        reversedWordsWriter.println(reversedWord.reverse());
      }

      if ((useTokenizer) && (lineCount % TOKENIZE_EVERY_N == 0)) {
        List<List<String>> levels = normalizer.tokenize(nextLine);
        for (List<String> levelWords : levels) {
          tokenizerPlacesCountCC.addAll(levelWords);
          totalTokenizerPlacesCount += levelWords.size();
        }
      }
    }

    System.out.println("total number of lines in files " + lineCount);

    System.out.println("Indexed a total of " + totalPlacesCount + " places.");
    System.out.println("Found a total of " + getPlacesCountCC().size() + " unique places.");
    getPlacesCountCC()
        .writeSorted(
            false,
            1,
            analysisPlacesOut != null
                ? new PrintWriter(new File(analysisPlacesOut, "placesCount.txt"))
                : new PrintWriter(System.out));

    System.out.println("Indexed a total of " + totalWordsCount + " words.");
    System.out.println("Found a total of " + getWordsCountCC().size() + " unique words.");
    getWordsCountCC()
        .writeSorted(
            false,
            1,
            analysisPlacesOut != null
                ? new PrintWriter(new File(analysisPlacesOut, "wordsCount.txt"))
                : new PrintWriter(System.out));

    System.out.println("Indexed a total of " + totalNumbersCount + " numbers.");
    System.out.println("Found a total of " + getNumbersCountCC().size() + " unique numbers.");
    getNumbersCountCC()
        .writeSorted(
            false,
            1,
            analysisPlacesOut != null
                ? new PrintWriter(new File(analysisPlacesOut, "numbersCount.txt"))
                : new PrintWriter(System.out));

    System.out.println("Indexed a total of " + endingsOfPlacesTotalCount + " endings.");
    System.out.println("Found a total of " + getEndingsOfPlacesCC().size() + " unique endings.");
    getEndingsOfPlacesCC()
        .writeSorted(
            false,
            1,
            analysisPlacesOut != null
                ? new PrintWriter(new File(analysisPlacesOut, "endingsCount.txt"))
                : new PrintWriter(System.out));

    if (useTokenizer) {
      System.out.println("Indexed a total of " + totalTokenizerPlacesCount + " normalized words.");
      System.out.println(
          "Found a total of " + getTokenizerPlacesCountCC().size() + " normalized words.");
      getTokenizerPlacesCountCC()
          .writeSorted(
              false,
              1,
              analysisPlacesOut != null
                  ? new PrintWriter(new File(analysisPlacesOut, "normalizedWordsCount.txt"))
                  : new PrintWriter(System.out));
    }
  }
  @RequestMapping(value = "/map.html")
  public ModelAndView map(
      @RequestParam(value = "q1", required = false) String q1,
      @RequestParam(value = "q2", required = false) String q2,
      @RequestParam(value = "q3", required = false) String q3,
      @RequestParam(value = "if", required = false, defaultValue = UimaUtils.MIMETYPE_STRING)
          String inputFormat,
      @RequestParam(value = "of", required = true, defaultValue = "html") String outputFormat,
      @RequestParam(value = "ofs", required = false, defaultValue = "pretty")
          String outputFormatStyle,
      @RequestParam(value = "sgf", required = false) String[] styGroupFilter,
      @RequestParam(value = "scf", required = false) String[] styCodeFilter) {

    ModelAndView mav = new ModelAndView();
    mav.addObject("operation", "map");
    // validate parameters (at least one of o, q, u or t must
    // be supplied, otherwise show the input form
    mav.addObject("q1", StringUtils.isEmpty(q1) ? "" : q1);
    mav.addObject("q2", StringUtils.isEmpty(q2) ? "" : q2);
    mav.addObject("q3", StringUtils.isEmpty(q3) ? "" : q3);
    String q =
        StringUtils.isNotEmpty(q1)
            ? q1
            : StringUtils.isNotEmpty(q2) ? q2 : StringUtils.isNotEmpty(q3) ? q3 : null;
    if (StringUtils.isEmpty(q)) {
      setViewName(mav, outputFormat, outputFormatStyle);
      return mav;
    }
    try {
      if (NumberUtils.isNumber(q) && StringUtils.length(q) == 7) {
        return show(Integer.valueOf(q));
      } else {
        // show list of concepts
        String text = q;
        if ((q.startsWith("http://") && UimaUtils.MIMETYPE_HTML.equals(inputFormat))) {
          URL u = new URL(q);
          BufferedReader br = new BufferedReader(new InputStreamReader(u.openStream()));
          StringBuilder tbuf = new StringBuilder();
          String line = null;
          while ((line = br.readLine()) != null) {
            tbuf.append(line).append("\n");
          }
          br.close();
          text = tbuf.toString();
        }
        List<ConceptAnnotation> annotations = new ArrayList<ConceptAnnotation>();
        long startTs = System.currentTimeMillis();
        JCas jcas = UimaUtils.runAE(conceptMappingAE, text, inputFormat, null);
        FSIndex fsindex = jcas.getAnnotationIndex(ConceptAnnotation.type);
        for (Iterator<ConceptAnnotation> it = fsindex.iterator(); it.hasNext(); ) {
          ConceptAnnotation annotation = it.next();
          annotations.add(annotation);
        }
        CollectionUtils.filter(annotations, new StyGroupPredicate(styGroupFilter));
        CollectionUtils.filter(annotations, new StyCodePredicate(styCodeFilter));
        annotations = filterSubsumedConcepts(q, annotations);
        if (annotations.size() == 0) {
          mav.addObject("error", "No concepts found");
        } else {
          mav.addObject("text", text);
          mav.addObject("annotations", annotations);
          long endTs = System.currentTimeMillis();
          mav.addObject("elapsed", new Long(endTs - startTs));
        }
        setViewName(mav, outputFormat, outputFormatStyle);
      }
    } catch (Exception e) {
      mav.addObject("error", e.getMessage());
      setViewName(mav, outputFormat, outputFormatStyle);
    }
    return mav;
  }
Esempio n. 18
0
 /**
  * Checks if the value of this object is a boolean or numeric value.
  *
  * @return <code>true</code> if the value is a boolean or number, otherwise <code>false</code>
  */
 public boolean isBooleanOrNumeric() {
   return isBooleanValue(value) || NumberUtils.isNumber(value);
 }
  // For example, here is a line from the 5kb chr1 MAPQGE30 raw observed contact matrix
  // (GM12878_combined/5kb_resolution_intrachromosomal/chr1/MAPQGE30/chr1_5kb.RAWobserved):
  // 40000000 40100000 59.0
  // To normalize this entry using the KR normalization vector, one would divide 59.0 by the 8001st
  // line ((40000000/5000)+1=8001) and the 8021st line ((40100000/5000)+1=8021)
  // of GM12878_combined/5kb_resolution_intrachromosomal/chr1/MAPQGE30/chr1_5kb.KRnorm. The 8001st
  // line of the KR norm file is 1.2988778370674694;
  // The 8021st line of the KR norm file is 1.6080499717941548. So the corresponding KR normalized
  // entry for the entry above is 59.0/(1.2988778370674694*1.6080499717941548)
  // or 28.24776973966101.
  // If the KR normalization vector file is empty or all NaNs, then the KR algorithm didn’t converge
  // on that particular matrix (likely due to sparsity of the matrix).
  private static void processNormalizedInterContactInformation(
      String fileToRead,
      String baseName,
      String normMethod,
      String chrSmaller,
      String chrLarger,
      ArrayList<DesiredChrContact> contactsToCheck,
      String resolution,
      double minValue,
      TextFile outWriter)
      throws IOException {

    // ReadIn normalization chr1
    TextFile inputNormChr1 =
        new TextFile(
            baseName + "\\chr" + chrSmaller + "_" + resolution + "." + normMethod, TextFile.R);
    ArrayList<String> normFactorSmallerChr = inputNormChr1.readAsArrayList();
    inputNormChr1.close();

    //        System.out.println("Done reading norm factor 1");
    // ReadIn normalization chr2
    TextFile inputNormChr2 =
        new TextFile(
            baseName + "\\chr" + chrLarger + "_" + resolution + "." + normMethod, TextFile.R);
    ArrayList<String> normFactorLargerChr = inputNormChr2.readAsArrayList();
    inputNormChr2.close();

    //        System.out.println("Done reading norm factor 2");
    if (!Gpio.exists(fileToRead + ".sorted")) {
      umcg.genetica.io.chrContacts.SortInterChrContacts.readNonSortedWriteSorted(
          fileToRead, fileToRead + ".sorted");
    }

    int numberToBeMatched = 0;

    LineIterator it = FileUtils.lineIterator(new File(fileToRead + ".sorted"), "UTF-8");

    try {
      while (it.hasNext()) {
        String[] parts = StringUtils.split(it.nextLine(), '\t');

        int posChr1 = org.apache.commons.lang.math.NumberUtils.createInteger(parts[0]);
        int posChr2 = org.apache.commons.lang.math.NumberUtils.createInteger(parts[1]);

        while (numberToBeMatched < contactsToCheck.size()) {
          if (posChr1 < contactsToCheck.get(numberToBeMatched).getChrLocationSmaller()) {
            break;
          } else if (posChr1 == contactsToCheck.get(numberToBeMatched).getChrLocationSmaller()) {
            if (posChr2 < contactsToCheck.get(numberToBeMatched).getChrLocationLarger()) {
              break;
            }
            if (posChr2 == contactsToCheck.get(numberToBeMatched).getChrLocationLarger()) {
              if (((posChr1 / getNumericResolution(resolution)) + 1)
                  > normFactorSmallerChr.size()) {
                System.out.println(baseName);
                System.out.println("Smaller");
                System.out.println((posChr1 / getNumericResolution(resolution) + 1));
                System.out.println(normFactorSmallerChr.size());
                System.exit(-1);
              }
              if (((posChr2 / getNumericResolution(resolution)) + 1) > normFactorLargerChr.size()) {
                System.out.println(baseName);
                System.out.println("Larger");
                System.out.println((posChr2 / getNumericResolution(resolution)) + 1);
                System.out.println(normFactorLargerChr.size());
                System.exit(-1);
              }
              String factor1Base =
                  normFactorSmallerChr.get((posChr1 / getNumericResolution(resolution)) + 1);
              String factor2Base =
                  normFactorLargerChr.get((posChr2 / getNumericResolution(resolution)) + 1);

              double factor1 = 1.0;
              double factor2 = 1.0;

              if (NumberUtils.isNumber(factor1Base) && NumberUtils.isNumber(factor2Base)) {
                factor1 = Double.parseDouble(factor1Base);
                factor2 = Double.parseDouble(factor2Base);
              } else if (NumberUtils.isNumber(factor1Base)) {
                factor1 = Double.parseDouble(factor1Base);
                System.out.println("Error in files.");
                System.out.println("Base 2 is reset to 1");
              } else if (NumberUtils.isNumber(factor2Base)) {
                factor2 = Double.parseDouble(factor2Base);
                System.out.println("Error in files.");
                System.out.println("Base 1 is reset to 1");
              }

              double contact =
                  org.apache.commons.lang.math.NumberUtils.createDouble(parts[2])
                      / (factor1 * factor2);
              if (contact >= minValue) {
                outWriter.writeln(
                    contactsToCheck.get(numberToBeMatched).getSnpName()
                        + "\t"
                        + contactsToCheck.get(numberToBeMatched).getProbeName()
                        + "\t"
                        + posChr1
                        + "\t"
                        + posChr2
                        + "\tContact\t"
                        + contact
                        + "\t"
                        + org.apache.commons.lang.math.NumberUtils.createDouble(parts[2]));
                numberToBeMatched++;
              } else {
                outWriter.writeln(
                    contactsToCheck.get(numberToBeMatched).getSnpName()
                        + "\t"
                        + contactsToCheck.get(numberToBeMatched).getProbeName()
                        + "\t"
                        + posChr1
                        + "\t"
                        + posChr2
                        + "\t-\t-\t-");
                numberToBeMatched++;
              }

            } else if (posChr2 > contactsToCheck.get(numberToBeMatched).getChrLocationLarger()) {
              outWriter.writeln(
                  contactsToCheck.get(numberToBeMatched).getSnpName()
                      + "\t"
                      + contactsToCheck.get(numberToBeMatched).getProbeName()
                      + "\t"
                      + posChr1
                      + "\t"
                      + posChr2
                      + "\t-\t-\t-");
              numberToBeMatched++;
            }
          } else if (posChr1 > contactsToCheck.get(numberToBeMatched).getChrLocationSmaller()) {
            outWriter.writeln(
                contactsToCheck.get(numberToBeMatched).getSnpName()
                    + "\t"
                    + contactsToCheck.get(numberToBeMatched).getProbeName()
                    + "\t"
                    + posChr1
                    + "\t"
                    + posChr2
                    + "\t-\t-\t-");
            numberToBeMatched++;
          }
        }
      }
    } finally {
      LineIterator.closeQuietly(it);
    }
  }
Esempio n. 20
0
  /**
   * @param requestVO
   * @return
   */
  @Transactional(propagation = Propagation.REQUIRED)
  public int saveFindings(FindingsRequestVO requestVO) {
    Project project =
        getEntityManager().find(Project.class, Long.parseLong(requestVO.getProjectId()));

    // FINDINGS
    List<Finding> findingsList = new ArrayList<Finding>();
    for (FindingsVO findingsVO : CollectionUtil.safe(requestVO.getFindingsList())) {
      Finding findings = null;
      if (DataValidator.isNotEmpty(findingsVO.getFindingsCategoryId())
          || DataValidator.isNotEmpty(findingsVO.getFindingsText())) {

        if (!DataValidator.isNewRecord(findingsVO.getFindingsId())) {
          findings =
              getEntityManager().find(Finding.class, Long.parseLong(findingsVO.getFindingsId()));
        } else {
          findings = new Finding();
          if (findingsVO.getFindingsCategoryId() != null) {

            if (NumberUtils.isNumber(findingsVO.getFindingsCategoryId())) {
              findings.setFindingsCategory(
                  getEntityManager()
                      .find(
                          FindingsCategory.class,
                          Long.parseLong(findingsVO.getFindingsCategoryId())));
            } else {
              FindingsCategory findingsCategory = new FindingsCategory();
              findingsCategory.setFindingsCategoryDesc(findingsVO.getFindingsCategoryId());
              findingsCategory.setFindingsCategoryName(findingsVO.getFindingsCategoryId());
              getEntityManager().persist(findingsCategory);
              findings.setFindingsCategory(findingsCategory);
            }
          }
          findings.setFindingsText(
              (findingsVO.getFindingsText() == null)
                  ? RoadmapConstants.EMPTY_STRING
                  : findingsVO.getFindingsText().replace("&amp;", "&"));
          findings.setProject(project);
          getEntityManager().persist(findings);
        }
        findings.setFindingsText(
            (findingsVO.getFindingsText() == null)
                ? RoadmapConstants.EMPTY_STRING
                : findingsVO.getFindingsText().replace("&amp;", "&"));
        findings.setImportance(findingsVO.getImportance());
        if (!DataValidator.isNewRecord(findingsVO.getFindingsCategoryId())
            && NumberUtils.isNumber(findingsVO.getFindingsCategoryId())) {
          FindingsCategory findingsCategory =
              getEntityManager()
                  .find(FindingsCategory.class, Long.parseLong(findingsVO.getFindingsCategoryId()));

          findings.setFindingsCategory(findingsCategory);
        }

        findingsList.add(findings);
      }
    }

    // OPPORTUNITY
    List<Opportunity> opportunityList = new ArrayList<Opportunity>();
    for (OpportunityVO opportunityVO : CollectionUtil.safe(requestVO.getOpportunityList())) {
      Opportunity opportunity = null;
      if (DataValidator.isNotEmpty(opportunityVO.getOpportunityCategoryId())
          || DataValidator.isNotEmpty(opportunityVO.getOpportunityText())) {
        if (!DataValidator.isNewRecord(opportunityVO.getOpportunityId())) {
          opportunity =
              getEntityManager()
                  .find(Opportunity.class, Long.parseLong(opportunityVO.getOpportunityId()));
        } else {
          opportunity = new Opportunity();
          if (opportunityVO.getOpportunityCategoryId() != null) {
            if (NumberUtils.isNumber(opportunityVO.getOpportunityCategoryId())
                && isValidId(opportunityVO.getOpportunityCategoryId())) {
              opportunity.setOpportunityCategory(
                  getEntityManager()
                      .find(
                          OpportunityCategory.class,
                          Long.parseLong(opportunityVO.getOpportunityCategoryId())));
            } else {
              OpportunityCategory opportunityCategory = new OpportunityCategory();
              opportunityCategory.setOpportunityCategoryDesc(
                  opportunityVO.getOpportunityCategoryId());
              opportunityCategory.setOpportunityCategoryName(
                  opportunityVO.getOpportunityCategoryId());
              getEntityManager().persist(opportunityCategory);
              getEntityManager().flush();
              opportunity.setOpportunityCategory(opportunityCategory);
            }
          }
          opportunity.setOpportunityText(opportunityVO.getOpportunityText());
          opportunity.setProject(project);
          getEntityManager().persist(opportunity);
        }
        opportunity.setOpportunityText(opportunityVO.getOpportunityText());

        if (!DataValidator.isNewRecord(opportunityVO.getOpportunityCategoryId())
            && NumberUtils.isNumber(opportunityVO.getOpportunityCategoryId())
            && isValidId(opportunityVO.getOpportunityCategoryId())) {
          OpportunityCategory opportunityCategory =
              getEntityManager()
                  .find(
                      OpportunityCategory.class,
                      Long.parseLong(opportunityVO.getOpportunityCategoryId()));

          opportunity.setOpportunityCategory(opportunityCategory);
        }

        opportunityList.add(opportunity);
      }
    }

    List<Finding> projectFindingsListForRemoval =
        (List<Finding>)
            CollectionUtils.removeAll(CollectionUtil.safe(project.getFindings()), findingsList);
    for (Finding findingForRemoval : projectFindingsListForRemoval) {
      getEntityManager().remove(findingForRemoval);

      getEntityManager().flush();

      project.removeFinding(findingForRemoval);
    }

    List<Opportunity> projectOpportunityListForRemoval =
        (List<Opportunity>)
            CollectionUtils.removeAll(
                CollectionUtil.safe(project.getOpportunities()), opportunityList);

    for (Opportunity opportunityForRemoval : projectOpportunityListForRemoval) {

      getEntityManager().remove(opportunityForRemoval);

      getEntityManager().flush();

      project.removeOpportunity(opportunityForRemoval);
    }
    return RoadmapConstants.SAVE_SUCCESS;
  }
 private static boolean validNumber(String numberStr) {
   return numberStr != null && NumberUtils.isNumber(numberStr);
 }
Esempio n. 22
0
  public CParser(String sql, String outputFileName, int speed, int delay) {
    CSQL csql = new CSQL();
    csql.parser(sql);

    if (!csql.getTable().equals("arduino")) {
      System.err.println("Unknown table: " + csql.getTable());
      System.exit(0);
    }

    int digitalPins[] = {0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0};
    int analogPins[] = {0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0, 0};

    String columns[] = {
      "din1", "din2", "din3", "din4", "din5", "din6", "din7", "din8", "din9", "din10",
      "din11", "din12", "din13", "din14", "din15", "din16", "din17", "din18", "din19", "din20",
      "ain1", "ain2", "ain3", "ain4", "ain5", "ain6", "ain7", "ain8", "ain9", "ain10",
      "ain11", "ain12", "ain13", "ain14", "ain15", "ain16", "ain17", "ain18", "ain19", "ain20"
    };

    for (String field : csql.getFields()) {
      // カラム名が存在するか確認する
      if (!Arrays.asList(columns).contains(field)) {
        System.err.println("Unknown column: " + field);
        System.exit(0);
      }

      int pinIndex = Integer.valueOf(field.substring(3));
      if (field.startsWith("din")) {
        digitalPins[pinIndex] = 1;
      } else {
        analogPins[pinIndex] = 1;
      }
    }

    for (Expression expression : csql.getConditions()) {
      // WHERE句のカラム名が存在するか確認する
      String left = "";
      String right = "";
      if (expression instanceof EqualsTo) {
        left = ((EqualsTo) expression).getLeftExpression().toString();
        right = ((EqualsTo) expression).getRightExpression().toString();
      } else if (expression instanceof GreaterThan) {
        left = ((GreaterThan) expression).getLeftExpression().toString();
        right = ((GreaterThan) expression).getRightExpression().toString();
      } else if (expression instanceof GreaterThanEquals) {
        left = ((GreaterThanEquals) expression).getLeftExpression().toString();
        right = ((GreaterThanEquals) expression).getRightExpression().toString();
      } else if (expression instanceof MinorThan) {
        left = ((MinorThan) expression).getLeftExpression().toString();
        right = ((MinorThan) expression).getRightExpression().toString();
      } else if (expression instanceof MinorThanEquals) {
        left = ((MinorThanEquals) expression).getLeftExpression().toString();
        right = ((MinorThanEquals) expression).getRightExpression().toString();
      } else if (expression instanceof NotEqualsTo) {
        left = ((NotEqualsTo) expression).getLeftExpression().toString();
        right = ((NotEqualsTo) expression).getRightExpression().toString();
      }

      if (!Arrays.asList(columns).contains(left)) {
        System.err.println("Unknown column: " + left);
        System.exit(0);
      }

      int pinIndex = Integer.valueOf(left.substring(3));
      if (left.startsWith("din")) {
        digitalPins[pinIndex] = 1;
      } else {
        analogPins[pinIndex] = 1;
      }

      if (!NumberUtils.isNumber(right)) {
        System.err.println("missing value for " + right);
        System.exit(0);
      }
    }

    StringBuffer condition = new StringBuffer(" ");
    for (String token : csql.getWhere().split(" ")) {
      // WHERE句のSQL文法をC言語文法に書き換える
      if (token.equals("=")) {
        condition.append("== ");
      } else if (token.equals("AND")) {
        condition.append("&& ");
      } else if (token.equals("OR")) {
        condition.append("|| ");
      } else {
        condition.append(token + " ");
      }
    }

    try {
      File file = new File(outputFileName);
      PrintWriter printWriter = new PrintWriter(new BufferedWriter(new FileWriter(file)));

      // setup
      printWriter.println("void setup() {");
      printWriter.println(String.format("  Serial.begin(%d);", speed));
      for (int i = 0; i < digitalPins.length; i++) {
        if (digitalPins[i] == 1) printWriter.println(String.format("  pinMode(%d, INPUT);", i));
      }
      printWriter.println("}");
      printWriter.println("");

      // loop
      printWriter.println("void loop() {");
      for (int i = 0; i < digitalPins.length; i++) {
        if (digitalPins[i] == 1)
          printWriter.println(String.format("  int din%d = digitalRead(%d);", i, i));
      }
      for (int i = 0; i < analogPins.length; i++) {
        if (analogPins[i] == 1)
          printWriter.println(String.format("  int ain%d = analogRead(%d);", i, i));
      }

      // if
      printWriter.println(String.format("  if(%s) {", condition.toString()));
      printWriter.println("    Serial.print(\"[ \");");
      for (String field : csql.getFields()) {
        printWriter.println(String.format("    Serial.print(%s);", field));
        printWriter.println("    Serial.print(\" \");");
      }
      printWriter.println("    Serial.print(\"]\");");
      printWriter.println("  }");

      printWriter.println(String.format("  delay(%d);", delay));
      printWriter.println("}");

      printWriter.close();
    } catch (IOException e) {
      e.printStackTrace();
    }
  }