[Biophp-dev] I'll take a break...

[Serge Gregorio]

Nico,

Thanks for the info.  I'll throw some questions your way
re: PDB.  I already asked and the PDB people said that
data prior to 1996 differ a LOT from data that came after.
For example, prior to 1996, they filled positions 73 to 80
with the PDB ENTRY ID and the line number like: 1BPT  93

After 1996, they started using positions 73 to 80 for
storing data (e.g. HELIX section/field).  The problem
is they didn't a good job of separating the pre-1996 
and post-1996 data from their FTP site and/or explaining
the distinction in their informational webpages (or at 
least, from my experience...).  

>Didn't know you were working on that!

Ahehehe, I told you parsers were a priority... let's write
parsers for everything... from the Dead Sea scrolls to Bill
Gate's last will and testament.  *LOL* 

BTW, if you know of any other parsers written in PHP out 
there (partial or complete), please post a list here so
we can avoid double work.  Thanks!

Cheers!

Serge

--

On Fri, 16 May 2003 12:04:58  
 Nico Stuurman wrote:
>Didn't know you were working on that!   Beware, many (most??) of the  
>pdb entries in the database do not even stick to the pdb format.  I had  
>to go through a lot of trial and error to parse just a few fields  
>reliably  
>(http://phplabware.sourceforge.net/xlab/plugins/ 
>pdbs_plugin.php.source.html)
>
>Good luck,
>
>Nico


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