regex - How do I get perl to print n lines following a specific string? -


i have large file , want pull out atom symbols , coordinates equilibrium geometry. desired information displayed below:

       ***** equilibrium geometry located *****   coordinates of atoms (angs)            atom charge     x              y              z      -----------------------------------------------------------   c           6.0   0.8438492825  -2.0554543742   0.8601734285   c           6.0   1.7887997955  -1.2651150894   0.4121141006   n           7.0   1.3006136046   0.0934593194   0.2602148346

note: after coordinates finish there blank line.

i have so-far patched code makes sense me produces errors , not sure why. expects 1 file after calling on script, saves each line , changes $start==1 when sees string containing equilibrium geometry triggers recording of symbols , coordinates. continues save lines contain coordinate format until sees blank line finishes recording $geom. 

#!/usr/bin/perl  $num_args = $#argv + 1; if ($num_args != 1) {    print "\nmust supply gamess .log file.\n";    exit; }  $file = $argv[0]; open file, "<", $file;  $start = 0; $geom="";
     while (<file>) {  $line = $_;   if ( $line eq "\n" && ($start == 1) ) {        $start = 0; }   if ( $start == 1 && $line =~ m/\s+[a-z]+\s+[0-9\.]+\s+[0-9\.\-]+\s+[0-9\.\-]+\s+[0-9\.\-]+/ ) { $line =~ s/^\s+//; @coordinates = split(/\s+/,$line); $geom=$coordinates[0],$coordinates[3],$coordinates[4],$coordinates[5];   }  if ( $line =~ m/\s+\*+ equilibrium geometry located\s\*+\s+) {    $geom = "";    $start = 1;  } }  print $geom;

error message: unrecognized character \xc2; marked <-- here after <-- here near column 1 @ ./perl-grep line 5.

there invisible character on line 13

i have created file line (by cut/paste) , add 1 line above retyping

$geom="";

$geom="";

that looks same not (the second line buggy one)

[tmp]=> cat x | perl -ne '$line = $_; $hex = unpack "h*"; print "$hex $line" ' 2467656f6d3d22223b0a $geom=""; 2467656f6d3d22223be280a80a $geom="";

you can see there more character when hexamine file. => remove single line , retype

by way, there issue in file, miss close regexp '/'

if ( $line =~ m/\s+\*+ equilibrium geometry located\s\*+\s+) {

but guess, there still work finish script cause don't see purpose ;)


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