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#!/usr/bin/env perl
use strict;
use warnings;
use Data::Dumper;
use Cwd;
BEGIN { unshift( @INC, './lib' ) }
use Bio::Roary::External::Makeblastdb;
BEGIN {
use Test::Most;
use_ok('Bio::Roary::External::Blastp');
}
my $cwd = getcwd();
my $obj;
ok($obj = Bio::Roary::External::Blastp->new(
fasta_file => 't/data/some_fasta_file.fa',
blast_database => 'some_blast_database',
exec => $cwd.'/t/bin/dummy_blastp',
),'initialise object');
is($obj->_command_to_run, $cwd.'/t/bin/dummy_blastp -query t/data/some_fasta_file.fa -db some_blast_database -evalue 1e-06 -num_threads 1 -outfmt 6 -max_target_seqs 2000 | awk \'{ if ($3 > 98) print $0;}\' 2> /dev/null 1> results.out', 'Command constructed as expected');
ok($obj->run(), 'run dummy command');
unlink('results.out');
done_testing();
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