[Bioperl-l] EMBL Identifier line is incorrect when using SeqIO (1.4)

michael watson (IAH-C) michael.watson at bbsrc.ac.uk
Fri Oct 22 05:10:37 EDT 2004


Yes I tracked it down - the ID is limited to a string of 11 characters
in the Bioperl module, and so I assume it is so in the EMBL format.


-----Original Message-----
From: Hilmar Lapp [mailto:hlapp at gmx.net] 
Sent: 21 October 2004 16:42
To: michael watson (IAH-C)
Cc: Bioperl
Subject: Re: [Bioperl-l] EMBL Identifier line is incorrect when using
SeqIO (1.4)

If you make the ID shorter, is there still no space? I believe the ID 
is length-limited in EMBL, but I'd have to check the specs to be sure.


On Thursday, October 21, 2004, at 06:38  AM, michael watson (IAH-C) 

> Hi
> Using bioperl-1.4 on Suse Linux, I find that when writing sequences in

> EMBL format using SeqIO, there is no space left after the display_id 
> e.g.
> "J18191-1h03.p1k" becomes "ID   J18191-1h03.p1kstandard; DNA; UNK;
> BP."
> Mick
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Hilmar Lapp                            email: lapp at gnf.org
GNF, San Diego, Ca. 92121              phone: +1-858-812-1757

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