Hi,
What does the input file look like? Are any of these formats in the form that you have?
One problem I see is you are altering an array with pop while iterating over the array and this will likely cause problems.
Your code:
foreach $value (@num_value)
{
if ($value<$cut_off)
{
pop(@num_value);
+
}else{
last;
}
}
$sub1=substr($dna,-@num_value);
@qscopy=reverse @num_value;
foreach $value (@qscopy)
{
if ($value<$cut_off)
{
pop(@qscopy);
}else{
last;
}
}
First you iterate over @num_value popping off elements (wrongly I believe) and then you reverse the array into @gscopy and pop again, (wrongly again I believe), if the amount is less than $cut_off.
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