Peter Rice pmr at sanger.ac.uk
Thu Mar 20 04:44:58 EST 1997

In article <5gqp1p$nvv at news.u-strasbg.fr> pingouin at crystal.u-strasbg.fr (Francois JEANMOUGIN) writes:
>	   Also, the changes in the MSF format (which appears without the
>   PileUp word at the beginning), this from version 8 (I think). Would it
>   be possible for GCG to make a little page on their web site only describing
>   what is constant in a specific format? This will help the interaction
>   between GCG and other programms (like Clustal ;-).

Oh dear. I did tell GCG that clustal (and probably other programs) were
using the "PileUp" to identify MSF format and asked them whether they could
fix it. SeqLab seems to have had other requirements.

There is a description of MSF format in the GCG documentation. But it
is different for 8.1 and 9.0. 9.0 has some identification at the top
(!!AA_MULTIPLE_ALIGNMENT) that programs will be able to use.

But the critical part is supposed to be the "MSF:    Check:    .." line.
Peter Rice                           | Informatics Division,
E-mail: pmr at sanger.ac.uk             | The Sanger Centre,
Tel: (44) 1223 494967                | Wellcome Trust Genome Campus,
Fax: (44) 1223 494919                | Hinxton, Cambridge, CB10 1SA,
URL: http://www.sanger.ac.uk/~pmr/   | England

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