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Top Forums UNIX for Dummies Questions & Answers Help with finding matching position on strings Post 302507340 by ctsgnb on Thursday 24th of March 2011 05:06:37 AM
Old 03-24-2011
Code:
# str="GAT"
# awk -F"$str" -v V="$str"  'NF>1{for(i=1;i<NF;i++){match($0,".*"$i);print "Line:"NR,"Pos:",RSTART+RLENGTH,"to",RSTART-1+RLENGTH+length(V)}}' infile

Code:
# cat tst
CAGCAGCAAGATTTGCAGCAACAGCAACAAGTAGTGACTACAGTTGCCTCGCAAAGTCCT
CATGCAACTGCAACGGAAAAGGAGCCAGTACCCGCCGTGGTTGACGACCCACTGGAGAAC
ATGTTCGGAGATTATTCCAATGAGCCGTTCAACACCAATTTCGACGATGAATTTGGAGAT
# str="GAT"
# awk -F"$str" -v V="$str" 'NF>1{for(i=1;i<NF;i++){match($0,".*"$i);print "Line:"NR,"Pos:",RSTART+RLENGTH,"to",RSTART-1+RLENGTH+length(V)}}' tst
Line:1 Pos: 10 to 12
Line:3 Pos: 10 to 12
Line:3 Pos: 46 to 48
Line:3 Pos: 58 to 60
#

---------- Post updated at 06:59 PM ---------- Previous update was at 06:53 PM ----------

@Corona688 :

What was the content of your input file ?

(thiis is because it looks as if you were missing the third "GAT" on the last line)

---------- Post updated 2011-03-24 at 10:06 AM ---------- Previous update was 2011-03-23 at 06:59 PM ----------

Could be adapted easy for 1 display per line :

Code:
# str="GAT"
# awk -F"$str" -v V="$str" 'NF>1{for(i=1;i<NF;i++){match($0,".*"$i);x=RSTART+RLENGTH;y=y" : "x"-"x-1+length(V)};print "Line "NR y;x=y=z}' tst
Line 1 : 10-12
Line 3 : 10-12 : 46-48 : 58-60
#

If on SunOS/Solaris, use nawk instead of awk

Last edited by ctsgnb; 03-24-2011 at 06:12 AM..
This User Gave Thanks to ctsgnb For This Post:
 

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curs_instr(3X)															    curs_instr(3X)

NAME
instr, innstr, winstr, winnstr, mvinstr, mvinnstr, mvwinstr, mvwinnstr - get a string of characters from a curses window SYNOPSIS
#include <curses.h> int instr(char *str); int innstr(char *str, int n); int winstr(WINDOW *win, char *str); int winnstr(WINDOW *win, char *str, int n); int mvinstr(int y, int x, char *str); int mvinnstr(int y, int x, char *str, int n); int mvwinstr(WINDOW *win, int y, int x, char *str); int mvwinnstr(WINDOW *win, int y, int x, char *str, int n); DESCRIPTION
These routines return a string of characters in str, extracted starting at the current cursor position in the named window. Attributes are stripped from the characters. The four functions with n as the last argument return a leading substring at most n characters long (exclu- sive of the trailing NUL). RETURN VALUE
All of the functions return ERR upon failure, or the number of characters actually read into the string. X/Open defines no error conditions. In this implementation, if the window parameter is null or the str parameter is null, a zero is returned. NOTES
Note that all routines except winnstr may be macros. PORTABILITY
SVr4 does not document whether a length limit includes or excludes the trailing NUL. The ncurses library extends the XSI description by allowing a negative value for n. In this case, the functions return the string ending at the right margin. SEE ALSO
curses(3X). curs_instr(3X)
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