[BioRuby] EMBL parsing

Mitsuteru Nakao n at bioruby.org
Wed May 2 16:47:27 UTC 2007


Hi Anthony,

Thank you for your bug report.
Please let me know the accession numbers of EMBL genome
files you parsed.

Thanks in advance.

Mitsuteru the Bio::EMBL maintainer.
<n at bioruby.org>

> I am having a problem when parsing EMBL genome files.
>
> embl = open(filename)
> entry = embl.gets(Bio::EMBL::DELIMITER)
> seq_obj = Bio::EMBL.new(entry)
> puts seq_obj.sequence_length
>
>
> This takes a long time (minutes) and reports a sequence_length of 0



More information about the BioRuby mailing list