The messages you've quoted do NOT support your supposition that "the problem is that it needs to use the NCBI BLAST installed components, which it cannot find." They address themselves solely to what choroba pointed out: that the first use of each needs to be declared with a "my" as, for one possibility,
my ($blast_obj, $seq_obj, $report_obj, $result_obj);

If Perl couldn't find something you tried to use, it would have provided an additional message specifically stating that it can't find it (by name).

In reply to Re: BLAST and BioPerl by ww
in thread BLAST and BioPerl by GeneticistDrew

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