There are two files, File 1 and File 2. Both have data in columns. Three variables from File 1, var1, var2 and var3 need to match a single line of file2 and that line needs to be extracted and appended in 'results file'.
Wrote following code...could some one debug it for me.
#!/usr/bin/perl -w
#open file f-2
#print "Please type the filename of the data: ";
$sasa_file= 'File1';
$pdbfile='File2';
# Remove the newline from the DNA filename
open (MYXFILE,$sasa_file);
open (PDBFILE, $pdbfile);
while (<MYXFILE>){
chomp;
@sa = split(/\t/,$_);
#print "$sa[0] $sa
1 $sa
2\n";
#$res = substr $_, 0, 4;
#$res_no = substr $_, 4, 5;
#$atom =substr $_, 9, 3;
while (<PDBFILE>){
chomp;
$res = substr $_, 17, 3;
$res_no = substr $_, 22, 4;
$atom =substr $_, 13, 3;
#print " $res $res_no $atom \n" ; # works fine
if (( $sa[0]eq$res)&&($sa
1==$res_no)&&($sa
2 eq $atom))
{
print "$_"; # does not print anything.
}
}
}
close MYXFILE;
close PDBFILE;