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Full Discussion: How to pass a single quote to the program?
Top Forums UNIX for Beginners Questions & Answers How to pass a single quote to the program? Post 303036107 by Aurimas on Friday 14th of June 2019 08:15:08 AM
Old 06-14-2019
How to pass a single quote to the program?
Dear forum members,

My question is simple. I want to pass a single quote (') to be read as belonging as an addition to the letters C1', C2', C3', C4', C5', O1', O2', O3', O4' & O5' to the program voronota query-contacts which would be run through shell script and should print out numerical values. I tried writing C1\', C2\', C3\', etc. but am getting no results (blank when I am expecting numbers). Thus the question is how could I pass these letters with a single quote as an argument to voronota query-contacts command? The script is this:
Code:
#!/bin/bash
read -p "amino acid: " AAA
if [[ "ALA ARG ASN ASP CYS GLN GLY GLU HIS ILE \
	   LEU LYS MET PHE PRO SER THR TRP TYR VAL" =~ $AAA ]]
then
	for i in HS_*.pdb; 
		do
    		cat $i | voronota get-balls-from-atoms-file --annotated \
    			   | voronota calculate-contacts --annotated \
	    		   | voronota query-contacts --inter-residue --match-first "'R<$AAA>'" \
	    		   --match-second 'A<C1', C2' ,C3' ,C4' ,C5',O1 , O2, O3, O4, O5, O1',O2',O3',O4',O5',N1,N2,N3,C1,C2,C3,C4,C5>'  \
    		   	   | awk '{sum += $3} END {print sum}'
		done
else
	exit 1
fi

The output through command line in all the ways described I get is a blank one:
Code:







Thank you very much for your help. I will look forward to your responses.



Yours Sincerely,

Aurimas







        

        

       



            
            
            
            


            

            
            




            
                
            

            

        



        


        


 


        

        
        

        


 

            
        




















	


		


		 
		
			












	
	









    







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LEARN ABOUT MOJAVE



ppi::token::quotelike5.18








PPI::Token::QuoteLike(3)				User Contributed Perl Documentation				  PPI::Token::QuoteLike(3)

NAME

       PPI::Token::QuoteLike - Quote-like operator abstract base class

INHERITANCE

	 PPI::Token::QuoteLike
	 isa PPI::Token
	     isa PPI::Element

DESCRIPTION

       The "PPI::Token::QuoteLike" class is never instantiated, and simply provides a common abstract base class for the five quote-like operator
       classes. In PPI, a "quote-like" is the set of quote-like things that exclude the string quotes and regular expressions.

       The subclasses of "PPI::Token::QuoteLike" are:

       qw{} - PPI::Token::QuoteLike::Words
       `` - PPI::Token::QuoteLike::Backtick
       qx{} - PPI::Token::QuoteLike::Command
       qr// - PPI::Token::QuoteLike::Regexp
       <FOO> - PPI::Token::QuoteLike::Readline

       The names are hopefully obvious enough not to have to explain what each class is. See their pages for more details.

       You may note that the backtick and command quote-like are treated separately, even though they do the same thing. This is intentional, as
       the inherit from and are processed by two different parts of the PPI's quote engine.

SUPPORT

       See the support section in the main module.

AUTHOR

       Adam Kennedy <adamk@cpan.org>

COPYRIGHT

       Copyright 2001 - 2011 Adam Kennedy.

       This program is free software; you can redistribute it and/or modify it under the same terms as Perl itself.

       The full text of the license can be found in the LICENSE file included with this module.

perl v5.18.2							    2011-02-25						  PPI::Token::QuoteLike(3)





















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