Counting characters vertically Post: 302629419

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Top Forums Shell Programming and Scripting Counting characters vertically Post 302629419 by Corona688 on Tuesday 24th of April 2012 04:04:49 PM

04-24-2012

Registered User

Code:

$ cat types

1       T       1
1       C       2
2       C       1
2       T       2
3       A       1
3       G       2
4       T       1
4       C       2

$ cat vpos2.awk

BEGIN {
        while((getline<"types")>0)      T[$1,$2]=$3
        FS=">"; OFS="\t"
}

/^>/ {  NAMES[++L]=$2; next     }

L {
        for(N=1; N<=length($0); N++)
        {
                C=substr($0,N,1);
                A[NAMES[L],T[N,C]]++;
        }
}

END {
        for(N=1; N<=L; N++)
        {
                if(A[NAMES[N],""])
                        print NAMES[N],"NA";
                else if(A[NAMES[N], 1] && A[NAMES[N], 2])
                        print NAMES[N],"mixed";
                else if(A[NAMES[N], 1])
                        print NAMES[N], 1;
                else    print NAMES[N], 2;
        }
}

$ awk -f vpos2.awk data2

>A1
TCAT
>A2
CTGC
>A3
TCGC
>A4
TTAT
>A5
TTTT

$

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igawk

IGAWK(1)							 Utility Commands							  IGAWK(1)

NAME

       igawk - gawk with include files

SYNOPSIS

       igawk [ all gawk options ] -f program-file [ -- ] file ...
       igawk [ all gawk options ] [ -- ] program-text file ...

DESCRIPTION

       Igawk is a simple shell script that adds the ability to have ``include files'' to gawk(1).

       AWK programs for igawk are the same as for gawk, except that, in addition, you may have lines like

	      @include getopt.awk

       in your program to include the file getopt.awk from either the current directory or one of the other directories in the search path.

OPTIONS

       See gawk(1) for a full description of the AWK language and the options that gawk supports.

EXAMPLES

       cat << EOF > test.awk
       @include getopt.awk

       BEGIN {
	    while (getopt(ARGC, ARGV, "am:q") != -1)
		 ...
       }
       EOF

       igawk -f test.awk

SEE ALSO

       gawk(1)

       Effective AWK Programming, Edition 1.0, published by the Free Software Foundation, 1995.

AUTHOR

       Arnold Robbins (arnold@skeeve.com).

Free Software Foundation					    Nov 3 1999								  IGAWK(1)

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