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Full Discussion: Outputting characters after a given string and reporting the characters in the row below --sed
Top Forums Shell Programming and Scripting Outputting characters after a given string and reporting the characters in the row below --sed Post 303028723 by Don Cragun on Monday 14th of January 2019 02:20:01 AM
Old 01-14-2019
Quote:
Originally Posted by Xterra
Don
Thanks!
PS. If I would like to search for more than one string (GCATGAAAACATACA and TTTCCAGAAATTGT) and report different number characters (3 and 6. I should be able to do it passing the strings and number of charters as variables, right?

Code:
awk -vlen="3 6" -vstr="GCATGAAAACATACA TTTCCAGAAATTGT" '
BEGIN {	for (MX=n=split (str, TMP); n>0; n--) SRCH[TMP[n]] = n
	String = n
	StringLen = length(String)
}
/^@/ {	matchline = NR + 1
	qualityline = NR + 3
	next
}
NR == matchline {
	if(spot = index($0, String))
		printf("Codon:\t%s\tQuality Score:\t",
		    substr($0, spot + StringLen, len))
	else	qualityline = 0
	next
}
NR == qualityline {
	printf("%s\n", substr($0, spot + StringLen, len))
}' test.txt

I'm pretty sure that the code you have shown us above won't do what you want to do, but from your new description I'm not sure what it is that you're trying to do.

The String variable in my code needs to be a string; not a number representing an index into the TMP[] and/or SRC[] arrays. If you're looking for multiple strings on the 2nd line of each group of input lines you're processing, you need to perform more than one index() operation to search for those strings.

If you could give us a clearer description and show us the output you hope to produce from your new requirements, maybe we could help.
This User Gave Thanks to Don Cragun For This Post:
Neo
 

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LEARN ABOUT DEBIAN

shtool-subst

SHTOOL-SUBST.TMP(1)					      GNU Portable Shell Tool					       SHTOOL-SUBST.TMP(1)

NAME

       shtool-subst - GNU shtool sed(1) substitution operations

SYNOPSIS

       shtool subst [-v|--verbose] [-t|--trace] [-n|--nop] [-w|--warning] [-q|--quiet] [-s|--stealth] [-i|--interactive] [-b|--backup ext]
       [-e|--exec cmd] [-f|--file cmd-file] [file] [file ...]

DESCRIPTION

       This command applies one or more sed(1) substitution operations to stdin or any number of files.

OPTIONS

       The following command line options are available.

       -v, --verbose
	   Display some processing information.

       -t, --trace
	   Enable the output of the essential shell commands which are executed.

       -n, --nop
	   No operation mode. Actual execution of the essential shell commands which would be executed is suppressed.

       -w, --warning
	   Show warning on substitution operation resulting in no content change on every file. The default is to show a warning on substitution
	   operations resulted in no content change on all files.

       -q, --quiet
	   Suppress warning on substitution operation resulting in no content change.

       -s, --stealth
	   Stealth operation. Preserve timestamp on file.

       -i, --interactive
	   Enter interactive mode where the user has to approve each operation.

       -b, --backup ext
	   Preserve backup of original file using file name extension ext.  Default is to overwrite the original file.

       -e, --exec cmd
	   Specify sed(1) command directly.

       -f, --file cmd-file
	   Read sed(1) command from file.

EXAMPLE

	#   shell script
	shtool subst -i -e 's;(c) ([0-9]*)-2000;(c) 1-2001;' *.[ch]

	#    RPM spec-file
	%install
	    shtool subst -v -n 
		-e 's;^(prefix=).*;1 $RPM_BUILD_ROOT%{_prefix};g' 
		-e 's;^(sysconfdir=).*;1 $RPM_BUILD_ROOT%{_prefix}/etc;g' 
		`find . -name Makefile -print`
	    make install

HISTORY

       The GNU shtool subst command was originally written by Ralf S.  Engelschall <rse@engelschall.com> in 2001 for GNU shtool.  It was prompted
       by the need to have a uniform and convenient patching frontend to sed(1) operations in the OpenPKG package specifications.

SEE ALSO

       shtool(1), sed(1).

18-Jul-2008							   shtool 2.0.8 					       SHTOOL-SUBST.TMP(1)
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