[Bioperl-l] format checking

Brian Osborne brian_osborne at cognia.com
Tue Jan 4 15:46:03 EST 2005


Guido,

The answer is sometimes yes, sometimes no, Bioperl doesn't appear to be
consistent. This is Bug 1508:

http://bugzilla.bioperl.org/show_bug.cgi?id=1508


Brian O.

-----Original Message-----
From: bioperl-l-bounces at portal.open-bio.org
[mailto:bioperl-l-bounces at portal.open-bio.org]On Behalf Of Guido
Dieterich
Sent: Tuesday, January 04, 2005 9:45 AM
To: Bioperl List
Subject: [Bioperl-l] format checking


Hi bioperlaner,


            <code>$seqIO = Bio::SeqIO->new(-fh   => \*FH,
        -format=>'fasta');</code>
        I tried this
        as a fasta file

        gene_name>
        PPPPGGGAAAAA # any Sequence

        this does not create an error

        does the  Bio::SeqIO checks if a file or filehandle is in the
        appr opiate format,eg. a fasta format?
        It seems that not, or?

        Guido

--


Dr. Guido Dieterich
Dipl.-Biologe

BioComputing
SB  - Strukturbiologie                                     \==-|
GBF - Gesellschaft fuer Biotechnologische Forschung         \=/
0010010010100101110010
      German Research Centre for Biotechnology		    /-\
                                                           /-==|
0010100100111101010010
WWW: http://www.gbf.de         _/_/_/   _/_/_/   _/_/_/   |==-/
EMAIL: gdi at gbf.de            _/    _/  _/   _/  _/	   \=/
0100100100010010010101
                            _/        _/   _/  _/          /\
Mascheroder Weg 1          _/  _/    _/_/_/   _/_/_/      /=-\
1101001010100101010101
D-38124 Braunschweig      _/    _/  _/   _/  _/
Tel: +(49) 531 6181 745  _/    _/  _/   _/  _/
FAX: +(49) 531 2612 388   _/_/_/  _/_/_/   _/

http://www.gbf.de/sb


Es ist nicht genug, zu wissen, man muss auch anwenden.
Es ist nicht genug, zu wollen, man muss auch tun.
JOHANN WOLFGANG VON GOETHE
Deutscher Dichter
(1749 - 1832)
_______________________________________________
Bioperl-l mailing list
Bioperl-l at portal.open-bio.org
http://portal.open-bio.org/mailman/listinfo/bioperl-l





More information about the Bioperl-l mailing list