Global Parameters                     Description
                                      
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-CHEck                                Prints a summary of the available
                                      command-line parameters and prompts
                                      you for any additions you may want
                                      to make to the command line.
                                      
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-Default                              Tells the program to suppress all
                                      interaction and to use the
                                      program's default values for every
                                      parameter that is not explicitly
                                      defined on the command line.
                                      
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-DOCLines=6                           Sets the number of lines of
                                      documentation that Wisconsin
                                      Package programs copy from input
                                      files to output files.  This option
                                      sets a program to copy any number
                                      of lines you choose.  The default
                                      is six lines.
                                      
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-FASTA                                Sets a program to accept sequences
                                      in FastA format.
                                      
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-FAITHful                             Sets a program to copy all of the
                                      input file's documentary heading,
                                      including blank lines, into output
                                      files.
                                      
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-INITialize=initialization_file.init  Names the file the program should
                                      use as a command-line
                                      initialization file (see "Using
                                      Command-Line Initialization Files"
                                      in the "For Advanced Users" section
                                      in Chapter 3 of the User's Guide). 
                                      If you do not specify the
                                      initialization_file.init, the
                                      program will use the file with a
                                      name the same as the program and
                                      the file extension .Init, for
                                      example % map -INIT uses the file
                                      Map.Init.
                                      
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-NODOCumentation                      Suppresses the short banner that
                                      introduces each program.
                                      
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-QUIet                                Sets a program not to ring the
                                      terminal bell, even when an error
                                      occurs.
                                      
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-STAden                               Sets a program to accept sequences
                                      in Staden format.
                                      
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