[Bioperl-l] Problems with a while loop, please help

manni122 markus.liebscher at gmx.de
Mon Mar 16 07:29:14 EDT 2009

Hi there, I need a little bit help in simple programming. I have two arrays
in which codons are stored. These arrays I need to compare. If I find
similar codons at the same position in both arrays everything is fine, if
not I am splitting every codon further into the bases.

		@zwvalue1 = split(//, $value1);
		@zwvalue2 = split(//, $value2); 

And then I want to compare base 1 from array 1 with base 1 from array 2 and
so on. But if I am looking at the values from the following while loop
			my $k = 0;
			while ($k <= 2) {
			$value1a = @zwvalue1[$k];
			$value1b = @zwvalue2[$k];
			$value2a = @zwvalue1[$k+1];
			$value2b = @zwvalue2[$k+1];
			$value3a = @zwvalue1[$k+2];
			$value3b = @zwvalue2[$k+2];
			print "@zwvalue1, $value1a, $value2a, $value3a\n";			
		    continue {

I get as output for example:
T A A, T, A, A
T A A, A, A,
T A A, A, ,

Why is this loop running 3times? I just need this loop running once to
compare all three bases at one time.
Any help is appreciated.
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