Hello dimitris852,

The documentation for Bio::DB::GenBank states that the set_Seq_by_id method takes only one argument which is the id (as a string) of a sequence. It does not appear that you can supply a list of sequences as the argument.

So, if you want to write multiple sequences you will need to do something like this: 

foreach my $id (@lines) {
    my $seq = $gb->get_Seq_by_id($id);
    write_sequence( ">>roar.fa", 'fasta', $seq );
}

[download]
Note that I changed the write mode from > to >> in order to append to the file. So, you should delete any old roar.fa file that may exist before running the script again.

In reply to Re: Get Fasta file with Protein Sequences given a file with Genbank Ids using Perl by kevbot
in thread Get Fasta file with Protein Sequences given a file with Genbank Ids using Perl by dimitris852

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