The following code allows you to download a protein sequence from Genbank and store it in a fasta file.

use Bio::DB::GenBank;
my $gb=new Bio::DB::GenBank;
my $seq= $gb->get_Seq_by_id ("asdadasda");

write_sequence (">roar.fa", 'fasta',$seq );

[download]

But what if i want to make Perl download all the sequences given a file with protein Ids and then store it to a fasta. I assume that I want to read the  sec.txt into an array @lines and I try the following code:

use Bio::DB::GenBank;

open my $handle, '<', 'sec.txt';
my @lines = <$handle>;
close $handle;
print @lines;


my $gb=new Bio::DB::GenBank;
my $seq= $gb->get_Seq_by_id ("@lines");

write_sequence (">roar.fa", 'fasta',$seq );

[download]
The problem is that in my file roar.fa it is still printed the same result as with the first code: Only the first sequence derived from 'asdadasda' .Below is the sec.txt file:

asdadasda
eeeeerrrr
vfffvvvfv
raerrrrrr

[download]

Thanks!

In reply to Get Fasta file with Protein Sequences given a file with Genbank Ids using Perl by dimitris852

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