Global Switch             Description               Complementary Switch
                                                    
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% comcheck                Displays a summary of     % nocomcheck
                          command-line parameters   
                          and displays the prompt   
                          "Add what to the          
                          command line?"  You can   
                          type the additional       
                          parameters you want at    
                          that time.                
                                                    
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% nobeep % quiet          Turns off the             % beep % noisy
                          bell-ringing function     
                          of all programs.          
                                                    
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% nodoc % terse           Turns off the             % doc % verbose
                          documentation that        
                          appears when you use      
                          Wisconsin Package         
                          commands.  This           
                          documentation may be      
                          tedious if you are        
                          familiar with the         
                          programs or if your       
                          connection to the         
                          computer is slow.         
                                                    
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% seqformat staden %      Sets your programs to     % seqformat gcg
seqformat fasta           accept sequences from     
                          files in Staden or        
                          FastA format.             
                                                    
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% doclines 10             Sets the number of lines  % doclines 6
                          of documentation that     
                          Wisconsin Package         
                          programs copy from        
                          input files into output   
                          files.  The default       
                          number of non-blank       
                          lines copied is six.      
                                                    
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% modifybatch             Lets you define the time  % modifybatch
                          at which programs that    
                          accept the -BATch         
                          parameter are submitted   
                          to the batch queue.       
                                                    
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% noplotcheck             Turns off the report of   % plotcheck
                          your current graphics     
                          configuration that        
                          appears when you run a    
                          graphics program.         
                                                    
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% plotterm                Sets your terminal to     % noplotterm
                          "NoBroadcast" so that     
                          if a plotter is           
                          attached to your          
                          terminal, it will plot    
                          without the confusion     
                          of system messages that   
                          can destroy the plot.     
                          This global switch also   
                          sets and verifies that    
                          the plotter is            
                          connected to the          
                          terminal and not some     
                          other port.               
                                                    
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% gif* % hpgl %           Lets you define the type  % gif* % hpgl %
postscript % regis %      of graphics output        postscript % regis %
sixel % tektronix %       device you want to use    sixel % tektronix %
xwindows                  and the port to which     xwindows
                          it is connected.  (See    
                          "Configuring Graphics     
                          Languages and Devices"    
                          in Appendix C, Graphics   
                          in this manual for        
                          descriptions of these     
                          devices.)                 
                                                    
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