[Bioperl-l] Initial draft of bioperl tutorial committed

[Heikki Lehvaslaiho]

P.S. The URL for the wrapped version of the text is:

http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/bptutorial.pl?rev=1.2&content-type=text/vnd.viewcvs-markup&cvsroot=bioperl

With new versions coming in shortly it is best to use:

http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/bptutorial.pl?cvsroot=bioperl

And select the last from there.

	-Heikki

Heikki Lehvaslaiho wrote:
> 
> Dear Peter,
> 
> Wonderful! Thank you very much for writing the tutorial. Before any of
> us goes into details I though it best to wrap the words and remove ^Ms
> for easier viewing. CVS  is happier with short lines, too. This was
> easy enough to do in emacs.
> 
> Thanks again,
> 
>         -Heikki
> 
> Peter Schattner wrote:
> >
> > Hello all
> >
> > I have committed an initial draft of an introductory bioperl tutorial
> > (called "bptutorial.pl") to the bioperl-live (main) repository.  The
> > draft tutorial pretty much follows the outline from my proposal:
> > http://bioperl.org/pipermail/bioperl-l/2000-December/001972.html
> > One addition to the original proposal is that I have included an
> > "appendix" which is a working script that demonstrates most of the
> > bioperl features described in the tutorial. (The script is largely
> > cut-and-pasted from various test and example files with print statements
> > added to make it clearer as to what is going on).
> >
> > I believe that having a clear and accurate tutorial could make bioperl
> > more accessible and widely used.  On the other hand, if the tutorial is
> > confusing or contains mistakes, it will turn people away from trying
> > bioperl (and probably be worse than not having one at all).   So I have
> > a request.  I would appreciate it if some of you would read the tutorial
> > and give me feedback in terms of clarity and accuracy.  I am interested
> > in both general comments (eg "this section is too long - cut out
> > such-and-such" or "this module description fits better in this section"
> > or "this module will not be included in the 0.7 release so don't include
> > it" ) and specific places where there are errors or misleading or
> > confusing statements.  (If you think that the tutorial is clear and/or
> > that specific parts are particularly helpful I'd of course be happy to
> > get that feedback too :--).  Suggestions on improving the formatting
> > would also be appreciated.
> >
> > I would definitely like feedback from people who have written modules
> > which are in the 0.7 release to make sure that I have captured your
> > intent and the proper usage of your module(s). I would also like
> > comments from folks who are simply bioperl users and, ideally, from a
> > few people who haven't used bioperl much before to see in what ways the
> > tutorial makes it easier to use or get started using bioperl (or
> > doesn't).  Feel free to write to me directly at schattner@alum.mit.edu
> > or via this list.  Thanks.
> >
> > If you just want to look at the tutorial, you can view it through the
> > web browsable CVS at :
> > http://cvs.bioperl.org/cgi-bin/viewcvs/viewcvs.cgi/bioperl-live/bptutorial.pl?rev=1.1&content-type=text/vnd.viewcvs-markup&cvsroot=bioperl.
> >
> > (Note: you may need to view the tutorial through a word processor to get
> > the lines to wrap properly and to get rid of extra '^M's.  If someone
> > can tell me how I need to reformat the file so this is not necessary I'd
> > be grateful.)
> >
> > If you want to also run the tutorial script, you will need to have a
> > copy  of CVS "bioperl-live". The tutorial script will *not* work with
> > release 0.6. (Note that the contents of bioperl-live are being updated
> > often so some of the demo scripts may fail - they're working for me now
> > and if they start failing I'd appreciate finding out).
> >
> > Cheers
> >
> > Peter
> > _______________________________________________
> > Bioperl-l mailing list
> > Bioperl-l@bioperl.org
> > http://bioperl.org/mailman/listinfo/bioperl-l
> 
> --
> ______ _/      _/_____________________________________________________
>       _/      _/                      http://www.ebi.ac.uk/mutations/
>      _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
>     _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
>    _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
>   _/  _/  _/  Cambs. CB10 1SD, United Kingdom
>      _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
> ___ _/_/_/_/_/________________________________________________________
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> Bioperl-l mailing list
> Bioperl-l@bioperl.org
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-- 
______ _/      _/_____________________________________________________
      _/      _/                      http://www.ebi.ac.uk/mutations/
     _/  _/  _/  Heikki Lehvaslaiho          heikki@ebi.ac.uk
    _/_/_/_/_/  EMBL Outstation, European Bioinformatics Institute
   _/  _/  _/  Wellcome Trust Genome Campus, Hinxton
  _/  _/  _/  Cambs. CB10 1SD, United Kingdom
     _/      Phone: +44 (0)1223 494 644   FAX: +44 (0)1223 494 468
___ _/_/_/_/_/________________________________________________________