[BioRuby] GFF3

[Pjotr Prins]

On Fri, Aug 13, 2010 at 12:12:05AM +0900, Naohisa GOTO wrote:
> > Now, to print FASTA I now do:
> > 
> >   gff3.sequences.each do | item |
> >     print item.to_fasta(item.entry_id, 70)
> >   end
> 
>  gff3.sequences.each do | item |
>    print item.output(:fasta)
>  end

As it stands, it is not a direct replacement as the entry_id gets
printed twice. Also when I replace 

line 971: @sequences.collect { |s| s.to_fasta(s.entry_id, 70) }.join('')

with the output(:fasta) equivalent, the unit test in BioRuby fails,
because the ID becomes 'test01 test01' instead of 'test01'.

Does it mean we have to modify 's', to get the proper output?

Pj.