Re: Keep getting "use of unitialized value" error in a weird place

[johngg]

Are you sure you want $aa-1 as the offset in your substr?

$ perl -Mstrict -Mwarnings -E '
my $str = q{abc} x 3;         
for ( my $idx = 0; $idx < length $str; $idx += 3 )
{
    my $three = substr $str, $idx - 1, 3;
    say $three;
}'
c
cab
cab
$

$ perl -Mstrict -Mwarnings -E '
my $str = q{abc} x 3;
for ( my $idx = 0; $idx < length $str; $idx += 3 )
{
    my $three = substr $str, $idx, 3;
    say $three;
}'
abc
abc
abc
$

I know nothing of genetics so that might be what you want but it looks weird.

[LanX]

> but it looks weird.

... and if %codon is only holding 3-character keys this would explain uninitialized elements in @array4 ;)

[listendohg]

this will take away the error, but then when i look at the output of the loop it's littered with stop codons. if i print $lol2 from within the loop, i get the amino acid sequences and they look good (stops always followed by M or some alternative start codon), but i still get this error.

[LanX]

Look I have no idea what a "codon" is, you have to talk to us like programmer do ...

Update:

... and not like biologists.

See also basic debugging checklist