X-Git-Url: http://source.jalview.org/gitweb/?a=blobdiff_plain;f=forester%2Fjava%2Fsrc%2Forg%2Fforester%2Futil%2FSystemCommandExecutor.java;h=a4cdec544986bc949c927b4c7aeac6866f7b9ad0;hb=13e111a104747fd3c5678aed95215a61c980b595;hp=bb87989d2cdb3e28ed250470bb37e4e91ab0d246;hpb=c6db1dfeb009e379b3b53425b65cc4d11f49c1e8;p=jalview.git

diff --git a/forester/java/src/org/forester/util/SystemCommandExecutor.java b/forester/java/src/org/forester/util/SystemCommandExecutor.java
index bb87989..a4cdec5 100644
--- a/forester/java/src/org/forester/util/SystemCommandExecutor.java
+++ b/forester/java/src/org/forester/util/SystemCommandExecutor.java
@@ -3,28 +3,28 @@
  * This class can be used to execute a system command from a Java application.
  * See the documentation for the public methods of this class for more
  * information.
- * 
+ *
  * Documentation for this class is available at this URL:
- * 
+ *
  * http://devdaily.com/java/java-processbuilder-process-system-exec
- * 
+ *
  * Copyright 2010 alvin j. alexander, devdaily.com.
- * 
+ *
  * This program is free software: you can redistribute it and/or modify it under
  * the terms of the GNU Lesser Public License as published by the Free Software
  * Foundation, either version 3 of the License, or (at your option) any later
  * version.
- * 
+ *
  * This program is distributed in the hope that it will be useful, but WITHOUT
  * ANY WARRANTY; without even the implied warranty of MERCHANTABILITY or FITNESS
  * FOR A PARTICULAR PURPOSE. See the GNU Lesser Public License for more details.
- * 
+ *
  * You should have received a copy of the GNU Lesser Public License along with
  * this program. If not, see <http://www.gnu.org/licenses/>.
- * 
+ *
  * Please see the following page for the LGPL license:
  * http://www.gnu.org/licenses/lgpl.txt
- * 
+ *
  */
 
 package org.forester.util;
@@ -38,14 +38,13 @@ import java.util.List;
 public class SystemCommandExecutor {
 
     private final List<String>    _command_information;
-    private final String          _admin_password;
     private ThreadedStreamHandler _input_stream_handler;
     private ThreadedStreamHandler _error_stream_handler;
     private final static boolean  DEBUG = false;
 
     /**
      * Pass in the system command you want to run as a List of Strings, as shown here:
-     * 
+     *
      * List<String> commands = new ArrayList<String>();
      * commands.add("/sbin/ping");
      * commands.add("-c");
@@ -53,7 +52,7 @@ public class SystemCommandExecutor {
      * commands.add("www.google.com");
      * SystemCommandExecutor commandExecutor = new SystemCommandExecutor(commands);
      * commandExecutor.executeCommand();
-     * 
+     *
      * Note: I've removed the other constructor that was here to support executing
      *       the sudo command. I'll add that back in when I get the sudo command
      *       working to the point where it won't hang when the given password is
@@ -63,11 +62,10 @@ public class SystemCommandExecutor {
      */
     public SystemCommandExecutor( final List<String> command_information ) {
         if ( ( command_information == null ) || command_information.isEmpty() ) {
-            throw new IllegalArgumentException( "The commandInformation is required." );
+            throw new IllegalArgumentException( "command information is required" );
         }
         checkCmdFile( new File( command_information.get( 0 ) ) );
         _command_information = command_information;
-        _admin_password = null;
     }
 
     public static boolean isExecuteableFile( final File path_to_cmd_f ) {
@@ -114,9 +112,8 @@ public class SystemCommandExecutor {
             // these need to run as java threads to get the standard output and error from the command.
             // the inputstream handler gets a reference to our stdOutput in case we need to write
             // something to it, such as with the sudo command
-            _input_stream_handler = new ThreadedStreamHandler( inputStream, stdOutput, _admin_password );
+            _input_stream_handler = new ThreadedStreamHandler( inputStream, stdOutput );
             _error_stream_handler = new ThreadedStreamHandler( errorStream );
-            // TODO the inputStreamHandler has a nasty side-effect of hanging if the given password is wrong; fix it
             _input_stream_handler.start();
             _error_stream_handler.start();
             // TODO a better way to do this?
@@ -134,9 +131,9 @@ public class SystemCommandExecutor {
             // generated by process.waitFor() call
             throw e;
         }
-        //  finally {
+        // finally {
         return exit_value;
-        //  }
+        // }
     }
 
     /**