Esempio n. 1
0
  /** Write file with position and size of the login box */
  public static void writePersistence() {

    Messages.postDebug("LoginBox", "LoginBox.writePersistence");
    // If the panel has not been created, don't try to write a file
    if (position == null) return;

    String filepath = FileUtil.savePath("USER/PERSISTENCE/LoginPanel");

    FileWriter fw;
    PrintWriter os;
    try {
      File file = new File(filepath);
      fw = new FileWriter(file);
      os = new PrintWriter(fw);
      os.println("Login Panel");

      os.println(height);
      os.println(width);
      double xd = position.getX();
      int xi = (int) xd;
      os.println(xi);
      double yd = position.getY();
      int yi = (int) yd;
      os.println(yi);

      os.close();
    } catch (Exception er) {
      Messages.postError("Problem creating  " + filepath);
      Messages.writeStackTrace(er);
    }
  }
    /** Displays the labels and the values for the panel. */
    protected void displayPnlFields(HashMap hmPnl) {
      if (hmPnl == null || hmPnl.isEmpty()) return;

      Iterator keySetItr = hmPnl.keySet().iterator();
      String strLabel = "";
      String strValue = "";

      // if the file is empty, then create an empty set of textfields.
      if (hmPnl == null || hmPnl.isEmpty()) {
        displayNewTxf("", "");
        return;
      }

      Container container = getParent();
      if (container != null) container.setVisible(false);
      try {
        // Get each set of label and value, and display them.
        while (keySetItr.hasNext()) {
          strLabel = (String) keySetItr.next();
          strValue = (String) hmPnl.get(strLabel);

          displayNewTxf(strLabel, strValue);
        }

        if (container != null) container.setVisible(true);
        revalidate();
        repaint();
      } catch (Exception e) {
        Messages.writeStackTrace(e);
        // e.printStackTrace();
        Messages.postDebug(e.toString());
      }
    }
Esempio n. 3
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  protected String getSampleName(String strDir, String strTray) {
    String strSampleName = "";
    String strSample;
    int nTray = 0;
    try {
      nTray = Integer.parseInt(strTray);
    } catch (Exception e) {
    }

    if (nTray <= 0) return strSampleName;

    String cmd =
        "SELECT loc_,studystatus from study WHERE (autodir=\'"
            + strDir
            + "\') AND (hostname=\'"
            + getHost()
            + "\')";
    // NB: bArrSample[0] is not used; array implicitly initialized false
    boolean[] bArrSample = new boolean[nTray + 1];
    m_dbResult = null;

    try {
      m_dbResult = getdbmanager().executeQuery(cmd);
    } catch (Exception e) {
      return strSampleName;
    }
    if (m_dbResult == null) return strSampleName;

    try {
      while (m_dbResult.next()) {
        strSample = m_dbResult.getString(1);
        int nSample = 0;
        nSample = Integer.parseInt(strSample);
        try {
          bArrSample[nSample] = true;
        } catch (IndexOutOfBoundsException ioobe) {
          Messages.postDebug("getSampleName: index out of bounds: " + nSample);
        }
      }
      for (int i = 1; i < bArrSample.length; i++) {
        if (!bArrSample[i]) {
          strSampleName = String.valueOf(i);
          break;
        }
      }
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.writeStackTrace(e);
    }
    return strSampleName;
  }
    protected void writeAuditTrail(String strPath, String strUser, StringBuffer sbValues) {
      BufferedReader reader = WFileUtil.openReadFile(strPath);
      String strLine;
      ArrayList aListData = WUtil.strToAList(sbValues.toString(), false, "\n");
      StringBuffer sbData = sbValues;
      String strPnl = (this instanceof DisplayTemplate) ? "Data Template " : "Data Dir ";
      if (reader == null) {
        Messages.postDebug("Error opening file " + strPath);
        return;
      }

      try {
        while ((strLine = reader.readLine()) != null) {
          // if the line in the file is not in the arraylist,
          // then that line has been deleted
          if (!aListData.contains(strLine))
            WUserUtil.writeAuditTrail(new Date(), strUser, "Deleted " + strPnl + strLine);

          // remove the lines that are also in the file or those which
          // have been deleted.
          aListData.remove(strLine);
        }

        // Traverse through the remaining new lines in the arraylist,
        // and write it to the audit trail
        for (int i = 0; i < aListData.size(); i++) {
          strLine = (String) aListData.get(i);
          WUserUtil.writeAuditTrail(new Date(), strUser, "Added " + strPnl + strLine);
        }
        reader.close();
      } catch (Exception e) {
        e.printStackTrace();
      }
    }
Esempio n. 5
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  protected String gettitle(String strFreq) {
    StringBuffer sbufTitle = new StringBuffer().append("VnmrJ  ");
    String strPath = FileUtil.openPath(FileUtil.SYS_VNMR + "/vnmrrev");
    BufferedReader reader = WFileUtil.openReadFile(strPath);
    String strLine;
    String strtype = "";
    if (reader == null) return sbufTitle.toString();

    try {
      while ((strLine = reader.readLine()) != null) {
        strtype = strLine;
      }
      strtype = strtype.trim();
      if (strtype.equals("merc")) strtype = "Mercury";
      else if (strtype.equals("mercvx")) strtype = "Mercury-Vx";
      else if (strtype.equals("mercplus")) strtype = "MERCURY plus";
      else if (strtype.equals("inova")) strtype = "INOVA";
      String strHostName = m_strHostname;
      if (strHostName == null) strHostName = "";
      sbufTitle.append("    ").append(strHostName);
      sbufTitle.append("    ").append(strtype);
      sbufTitle.append(" - ").append(strFreq);
      reader.close();
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.logError(e.toString());
    }

    return sbufTitle.toString();
  }
Esempio n. 6
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 public void setVisible(boolean bShow, String title) {
   if (bShow) {
     String strDir = "";
     String strFreq = "";
     String strTraynum = "";
     m_strHelpFile = getHelpFile(title);
     String strSampleName = getSampleName(title);
     String frameBounds = getFrameBounds(title);
     StringTokenizer tok = new QuotedStringTokenizer(title);
     if (tok.hasMoreTokens()) strDir = tok.nextToken();
     if (tok.hasMoreTokens()) strFreq = tok.nextToken();
     if (tok.hasMoreTokens()) strTraynum = tok.nextToken();
     else {
       try {
         Integer.parseInt(strDir);
         // if strdir is number, then strdir is empty, and the
         // strfreq is the number
         strTraynum = strFreq;
         strFreq = strDir;
         strDir = "";
       } catch (Exception e) {
       }
     }
     try {
       setTitle(gettitle(strFreq));
       m_lblSampleName.setText("3");
       boolean bVast = isVast(strTraynum);
       CardLayout layout = (CardLayout) m_pnlSampleName.getLayout();
       if (!bVast) {
         if (strSampleName == null) {
           strSampleName = getSampleName(strDir, strTraynum);
         }
         m_lblSampleName.setText(strSampleName);
         layout.show(m_pnlSampleName, OTHER);
       } else {
         m_strDir = strDir;
         setTrays();
         layout.show(m_pnlSampleName, VAST);
         m_trayTimer.start();
       }
       boolean bSample = bVast || !strSampleName.trim().equals("");
       m_pnlSampleName.setVisible(bSample);
       m_lblLogin.setForeground(getBackground());
       m_lblLogin.setVisible(false);
       m_passwordField.setText("");
       m_passwordField.setCaretPosition(0);
     } catch (Exception e) {
       Messages.writeStackTrace(e);
     }
     setBounds(frameBounds);
     ExpPanel exp = Util.getActiveView();
     if (exp != null) exp.waitLogin(true);
   }
   writePersistence();
   setVisible(bShow);
 }
Esempio n. 7
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  protected void setTrayPresent(String strPath) {
    String strzone = "zones";
    BufferedReader reader = WFileUtil.openReadFile(strPath);
    if (reader == null) return;

    String strLine;
    try {
      // if the zones are set to 0, then there is no tray present
      // set rackInfo(1,zones) 3 => tray 1 present
      // set rackInfo(2,zones) 0 => tray 2 not present
      while ((strLine = reader.readLine()) != null) {
        int index = strLine.indexOf(strzone);
        if (index < 0) continue;

        String strTray = strLine.substring(index - 2, index - 1);
        int nTray = 0;
        try {
          nTray = Integer.parseInt(strTray);
        } catch (Exception e) {
        }

        if (nTray <= 0) continue;

        int nZone = 0;
        try {
          strTray = strLine.substring(index + strzone.length() + 2, strLine.length());
          nZone = Integer.parseInt(strTray);
        } catch (Exception e) {
        }

        Color colorbg = Color.white;
        String strTooltip = TRAY;
        if (nZone <= 0) {
          colorbg = Color.black;
          strTooltip = NOTRAY;
        }
        VBox pnlVast = m_pnlVast[nTray - 1];
        pnlVast.setbackground(colorbg);
        pnlVast.setToolTipText(Util.getTooltipString(strTooltip));
      }
      reader.close();
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.writeStackTrace(e);
    }
  }
Esempio n. 8
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  protected void setTrayActive(String strDir) {
    String strTray;
    String strStudy;
    String strActive = "Active";
    String cmd =
        "SELECT vrack_,studystatus from study WHERE (autodir=\'"
            + strDir
            + "\') AND (hostname=\'"
            + getHost()
            + "\')";
    m_dbResult = null;

    try {
      m_dbResult = getdbmanager().executeQuery(cmd);
    } catch (Exception e) {
      return;
    }
    if (m_dbResult == null) return;

    int nTray = 0;
    try {
      while (m_dbResult.next()) {
        strTray = m_dbResult.getString(1);
        strStudy = m_dbResult.getString(2);
        if (strStudy != null && strStudy.equalsIgnoreCase(strActive)) {
          try {
            nTray = Integer.parseInt(strTray);
          } catch (Exception e) {
          }

          if (nTray > 0) {
            m_pnlVast[nTray - 1].setbackground(Color.blue);
            m_pnlVast[nTray - 1].setToolTipText(Util.getTooltipString(TRAYACTIVE));
            break;
          }
        }
      }
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.writeStackTrace(e);
    }
  }
Esempio n. 9
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  protected static boolean vnmrjPassword(String strUser, char[] password) {
    boolean blogin = false;
    try {
      PasswordService objPassword = PasswordService.getInstance();
      String encrPassword = objPassword.encrypt(new String(password));
      if (pwprops == null) {
        String strPath = FileUtil.openPath(WUserUtil.PASSWORD);
        if (strPath == null) return blogin;
        pwprops = new Properties();
        FileInputStream fis = new FileInputStream(strPath);
        pwprops.load(fis);
        fis.close();
      }
      String stoPassword = pwprops.getProperty(strUser);
      if (encrPassword.equals(stoPassword)) blogin = true;
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.writeStackTrace(e);
    }

    return blogin;
  }
Esempio n. 10
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  protected void setVast() {
    String strPath = FileUtil.openPath("SYSTEM/asm/gilsonNumber");
    if (strPath == null) return;

    BufferedReader reader = WFileUtil.openReadFile(strPath);
    if (reader == null) return;

    String strLine;
    int i = 0;
    try {
      while ((strLine = reader.readLine()) != null) {
        strLine = strLine.trim();
        if (i == 0 || !m_aStrVast[i - 1].equals(strLine)) {
          m_aStrVast[i] = strLine;
          i = i + 1;
        }
      }
      reader.close();
    } catch (Exception e) {
      // e.printStackTrace();
      Messages.writeStackTrace(e);
    }
  }
Esempio n. 11
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    /** Reads the file, and sets the label and the values in the hashmap. */
    protected void setHM(String strPath, HashMap hmPnl) {
      BufferedReader reader = WFileUtil.openReadFile(strPath);
      boolean bFileEmpty = true;
      boolean bPart11Pnl = isPart11Pnl();
      boolean bDefaultFile = isDefaultFile();

      // if the file is empty, then create an empty set of textfields.
      if (reader == null) {
        // displayNewTxf("","");
        return;
      }

      String strLine = null;
      StringTokenizer strTok;

      try {
        // read the file, and create a new set of textfields,
        // with the values from the file.
        while ((strLine = reader.readLine()) != null) {
          String strLabel = "";
          String strValue = "";
          bFileEmpty = false;

          if (strLine.startsWith("#")
              || strLine.startsWith("@")
              || strLine.startsWith("%")
              || strLine.startsWith("\"@")) continue;

          if (strLine.startsWith("\"")) strTok = new StringTokenizer(strLine, "\"");
          else strTok = new StringTokenizer(strLine, File.pathSeparator + ",\n");

          if (!strTok.hasMoreTokens()) continue;

          strLabel = strTok.nextToken();

          // the format for the part11 Default file is a little different
          // only parse out the part11Dir, and don't display other defaults
          if (bPart11Pnl && bDefaultFile) {
            if (!strLabel.equalsIgnoreCase("part11Dir")) continue;
          }

          if (strTok.hasMoreTokens()) {
            while (strTok.hasMoreTokens()) {
              strValue += strTok.nextToken();
              if (strTok.hasMoreTokens()) strValue += " ";
            }
          }

          // append "/data/$name" to part11Dir
          if (bPart11Pnl && bDefaultFile && strLabel.equalsIgnoreCase("part11Dir")) {
            StringBuffer sbDir = new StringBuffer(strValue);
            if (sbDir.lastIndexOf(File.separator) < sbDir.length() - 1)
              sbDir.append(File.separator);
            sbDir.append("data" + File.separator + "$");
            sbDir.append(WGlobal.NAME);
            strValue = sbDir.toString();
          }

          // displayNewTxf(strLabel, strValue);
          if (strLabel != null && strLabel.trim().length() > 0) hmPnl.put(strLabel, strValue);
        }
        reader.close();
      } catch (Exception e) {
        Messages.writeStackTrace(e);
        // e.printStackTrace();
        Messages.postDebug(e.toString());
      }
    }
Esempio n. 12
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    /**
     * Write the file by writing the values from the labels, and the values list.
     *
     * @param strFile the file to be written.
     * @param aListLabels arraylist of texfields of labels.
     * @param aListValues arraylist of texfields of values.
     */
    protected void writeFile(
        String strUser, String strFile, ArrayList aListLabels, ArrayList aListValues) {
      String strPath = FileUtil.openPath(strFile);
      String strLabel = "";
      String strValue = "";
      StringBuffer sbValues = new StringBuffer();
      JTextField txfLabel = null;
      JTextField txfValue = null;
      boolean bNewFile = false;
      int nFDAMode = Util.getPart11Mode();

      // if it's the part11 pnl and the mode is nonFDA,
      // then don't write the file for this panel
      // the other way is not true.
      if (this instanceof DisplayParentDirectory) {
        if ((isPart11Pnl() && nFDAMode == Util.NONFDA)) {
          return;
        }
      }

      if (strPath == null) {
        strPath = FileUtil.savePath(strFile);
        bNewFile = true;
      }

      if (strPath == null || aListLabels == null) return;

      if (aListValues == null) aListValues = new ArrayList();

      // Get the list of the textfields for values and labels.
      int nLblSize = aListLabels.size();
      int nValueSize = aListValues.size();
      ArrayList<String> labelList = new ArrayList<String>();

      // Get the value from each textfield, and add it to the buffer.
      for (int i = 0; i < nLblSize; i++) {
        txfLabel = (JTextField) aListLabels.get(i);
        txfValue = (i < nValueSize) ? (JTextField) aListValues.get(i) : null;

        strLabel = (txfLabel != null) ? txfLabel.getText() : null;
        strValue = (txfValue != null) ? txfValue.getText() : "";

        // We need to be sure they don't have two data directories with
        // the same labels.  Save the label list if we are writing to
        // the "data" file.
        if (strFile.indexOf("data") != -1) {
          if (labelList.contains(strLabel)) {
            Messages.postError(
                "The Data Directory specifications "
                    + "must not have duplicate Label names. "
                    + "The Label \""
                    + strLabel
                    + "\" is duplicated.  "
                    + "Skipping the second instance.  Please "
                    + "specify a new Label.");
            continue;
          } else labelList.add(strLabel);
        }

        if (strLabel == null || strLabel.trim().length() <= 0 || strValue.equals(INFOSTR)) continue;

        // for user template tab, don't need to parse the value
        if (!(this instanceof DisplayTemplate)) strValue = getValue(strUser, strValue);
        strLabel = strLabel.trim();
        if (strValue != null) strValue = strValue.trim();

        // sbValues.append("\"");
        sbValues.append(strLabel);
        // sbValues.append("\"  ");

        sbValues.append(File.pathSeparator);
        sbValues.append(strValue);
        sbValues.append("\n");
      }

      if (Util.isPart11Sys()) writeAuditTrail(strPath, strUser, sbValues);

      // write the data to the file.
      BufferedWriter writer = WFileUtil.openWriteFile(strPath);
      WFileUtil.writeAndClose(writer, sbValues);

      // if it's a template file, then make it writable for everyone.
      if (bNewFile) {
        String strCmd = "chmod 755 ";
        if (this instanceof DisplayTemplate) strCmd = "chmod 777 ";
        if (Util.iswindows()) strPath = UtilB.windowsPathToUnix(strPath);
        String[] cmd = {WGlobal.SHTOOLCMD, WGlobal.SHTOOLOPTION, strCmd + strPath};
        WUtil.runScriptInThread(cmd);
      }
    }
Esempio n. 13
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  /**
   * Read position and size of the login box from a given abstract path.
   *
   * @param abstractPath The path to the file.
   */
  public void readPersistence(String abstractPath) {
    String filepath = FileUtil.openPath(abstractPath);

    if (filepath != null) {
      BufferedReader in;
      String line;
      try {
        File file = new File(filepath);
        in = new BufferedReader(new FileReader(file));
        // File must start with 'Login Panel'
        if ((line = in.readLine()) != null) {
          if (!line.startsWith("Login Panel")) {
            Messages.postWarning("The " + filepath + " file is " + "corrupted and being removed");
            // Remove the corrupted file.
            file.delete();
            // Set the size and position to the full vnmrj frame
            setDefaultSizePosition();

            return;
          }
        }
        String h = null, w = null, x = null, y = null;
        int xi, yi;

        if (in.ready()) h = in.readLine().trim();

        if (in.ready()) w = in.readLine().trim();

        if (in.ready()) x = in.readLine().trim();

        if (in.ready()) y = in.readLine().trim();

        in.close();

        // Save width and height for later use also
        height = Integer.decode(h).intValue();
        width = Integer.decode(w).intValue();
        xi = Integer.decode(x).intValue();
        yi = Integer.decode(y).intValue();
        // Save point for later use also
        position = new Point(xi, yi);

        // Set them
        setSize(width, height);
        setLocation(position);

        // If we got what we need and set the size and position,
        // just return now.
        return;
      }
      // If an exception, continue below
      catch (Exception e) {
      }
    }

    // No file or an excpetion happened, set default size and position
    // Be sure the file is gone
    try {
      if (filepath != null) {
        File file = new File(filepath);
        if (file != null) file.delete();
      }
    }
    // If an exception, just continue below
    catch (Exception e) {
    }

    // Set the size and position to the full vnmrj frame
    setDefaultSizePosition();
  }
Esempio n. 14
0
  protected void enterLogin() {
    char[] password = m_passwordField.getPassword();
    String strUser = (String) m_cmbUser.getSelectedItem();
    setCursor(Cursor.getPredefinedCursor(Cursor.WAIT_CURSOR));
    boolean blogin = WUserUtil.isOperatorNameok(strUser, false);
    if (blogin) {
      blogin = vnmrjPassword(strUser, password);
      if (!blogin) blogin = unixPassword(strUser, password);
    }
    if (blogin) {
      m_lblLogin.setForeground(Color.black);
      m_lblLogin.setText("Login Successful");
      m_lblLogin.setVisible(true);
      // Get the Email column string for access to the operator data
      String emStr = vnmr.util.Util.getLabel("_admin_Email");
      String stremail = WUserUtil.getOperatordata(strUser, emStr);

      // Get the Panel Level column string for access to the operator data
      String plStr = vnmr.util.Util.getLabel("_admin_Panel_Level");
      String strPanel = WUserUtil.getOperatordata(strUser, plStr);

      if (stremail == null || stremail.equals("null")) stremail = "";
      try {
        Integer.parseInt(strPanel);
      } catch (Exception e) {
        strPanel = WGlobal.PANELLEVEL;
      }
      m_trayTimer.stop();
      Messages.postDebug(" Login: "******"appdir('reset','")
                .append(strUser)
                .append("','")
                .append(stremail)
                .append("',")
                .append(strPanel)
                .append(")")
                .toString());
        exp.sendToVnmr("vnmrjcmd('util', 'bgReady')\n");
      }
      setVisible(false);

      // Save the current position and size of this panel in case it
      // was changed
      Dimension size = getSize();
      width = size.width;
      height = size.height;
      position = getLocation();
      writePersistence();

      // Call the macro to update this operator's
      // ExperimentSelector_operatorName.xml file
      // from the protocols themselves.  This macro will
      // cause an update of the ES when it is finished

      // Util.getAppIF().sendToVnmr("updateExpSelector");

      // I am not sure why we need to force updates since updateExpSelector
      // should have caused an update by writing to ES_op.xml file.
      // However, it works better if we do the force update.
      // ExpSelector.setForceUpdate(true);
    } else {
      m_lblLogin.setForeground(DisplayOptions.getColor("Error"));
      // m_lblLogin.setText("<HTML>Incorrect username/password <p> Please try again </HTML>");
      m_lblLogin.setVisible(true);
    }
    setCursor(Cursor.getDefaultCursor());
  }