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    0: #!/usr/bin/perl -w
    1: 
    2: use strict;
    3: use Bio::DB::GenBank;
    4: use Bio::SeqIO;
    5: use File::Basename;
    6: 
    7: # configuration information
    8: my $outfile  = 'outfile';
    9: my $progname = basename $0;
    10: 
    11: # usage information
    12: my $usage = "usage:  $0 accession1 [accession2 ...]\n";
    13: die $usage unless @ARGV;
    14: 
    15: # start program flow
    16: my $gb = new Bio::DB::GenBank( 
    17:    -retrievaltype => 'tempfile', 
    18:    -format => 'Fasta'
    19: );
    20: 
    21: my $seqout = Bio::SeqIO->new( -file => ">$outfile", -format => 'FASTA' );
    22: 
    23: my $seqio = $gb->get_Stream_by_acc( @ARGV );
    24: while( my $sequence =  $seqio->next_seq ) {
    25:    $seqout->write_seq($sequence);
    26: }

In reply to Fetching Biological Sequences from the NCBI by biosysadmin

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