Re^5: I don't understand error message

You have this in your standalone program:

my $in = new Bio::SearchIO(-format => 'blast',
    -file   => $maid_dir."/".$maid."aln_hu.aln",
    -report_type => 'blastn');
[download]

But you have this in your sub-routine:

my $in = new Bio::SearchIO(-format => 'blast',
    -file   => ">".$maid_dir."\\".$maid."aln_hu.aln",
    -report_type => 'blastn');
[download]

Could it be that the ">" stops Bio::SearchIO from reading/parsing the file?

CountZero

A program should be light and agile, its subroutines connected like a string of pearls. The spirit and intent of the program should be retained throughout. There should be neither too little or too much, neither needless loops nor useless variables, neither lack of structure nor overwhelming rigidity." - The Tao of Programming, 4.1 - Geoffrey James

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