Hi PerlMonks,
I'm having trouble writing a script so I've come here seeking assistance.
I need to replace part of a line with part of the following line if a requirement is met.
Example of file:
<Hit_num>6</Hit_num>
<Hit_id>gnl|BL_ORD_ID|3665984</Hit_id>
<Hit_def>gi|158703516|gb|ABW77886.1| odorant-bin...
<Hit_accession>3665984</Hit_accession>
I need to replace "gnl|BL_ORD_ID|3665984" that bit in the second line with "gi|158703516|gb|ABW77886.1|" this bit in the third line.
My current script is:
#!/usr/bin/perl -w
use strict;
use warnings;
my $file = "$ARGV[0]";
open IN, ">fixed_$file";
open A, $file;
my $replace = ();
while (<A>) {
if ($_ =~ /Hit_id/) {
next;
$replace =~ m/gi|.|/;
}
$_ =~ s/\>.\</\>$replace\</;
print IN "$_";
}
close IN;
close A;
exit;
I don't think next is doing what I want nor do I know if my regular expression are correct.
Any help would be appreciated.
Thanks