Minor changes

Aligner workflow improved to be mor sensitive to errors. executeCommand param changed form (String command) to (String ... args). improved Cancel button behaviour. Updated picard to 1.106 and GATk to 2.8-1
Moved out from Dropbox

Project is allocated in local directories, non synced with Dropbox.
LineParser

Created LineParser to capture console output and transform it into graphical progress
Commands repaired

All command system repaired. Commands are launched by Command class. Every Worked must be reviewed to accept this class. executeCommand from Worked erased. Some pipe problems.
Some tools fixed
Severe output problems

There are several critical stability problems while printing output i index or align...
Almost all external commands problems erased

No more problems with GUI when executing external commands, id est system calls. Problems appeared when I tried to capture both standard and error output separated from commands. GUI got blocked continuously. Also, I tried to simulate Linux pipes capturing those outputs, so I lost two weeks. 
Finally I call all system commands with error and standard outputs merged. Pipes must be done by system shell. Use new Command(args).execute() for non-piped commands and new Command(args).execute(true) for commands with pipes or redirects (| >).