[Biopython] [Biopython-dev] Bio.CAPS module submission

[Peter Cock]

Dear Jonathan,

Back in 2005 you contributed the Bio.CAPS module to Biopython.

https://github.com/biopython/biopython/blob/master/Bio/CAPS/__init__.py

Since then, we have started an effort to dual license the code
under both the "Biopython License Agreement" (a unique license)
and the "BSD 3-Clause License" (a widely used mainstream open
source license).

To that end, we are asking all our contributors to publicly agree
to dual license their contributions - either by email, or on this
GitHub issue (in this case as far as I know you don't have a
Github account):

https://github.com/biopython/biopython/issues/898

Would you agree to this too please?

Rather than asking you to sign up to our subscriber only mailing
list (if your subscription has lapsed), I would forward any
agreement to the list as a public record.

Many thanks,

Peter

Peter
On Wed, Jun 14, 2006 at 11:34 PM Jonathan Taylor
<jonathan.taylor at utoronto.ca> wrote:
>
> I have been doing a fair amount of work using CAPS markers for
> genotyping.  A CAPS marker is essentially a pair (snp, enzyme) where the
> snp is the location in a set of sequences (an alignment) in which a
> polymorphism causes an enzyme to cut differentially.
>
> I'm interested in contributing a module that does most of the work for
> me.  I am willing to maintain it and provide documentation.  It already
> has a few unittest test cases.
>
> The module's main function is in the CAPS.CAPSMap class.  This class
> takes a Bio.Align.Alignment object and uses the Bio.Restriction package
> to find all the (possible) CAPS markers within the alignment and to
> provide information to build caps marker based programs.
>
> The module is at:
> http://bbc.botany.utoronto.ca/~jtaylor/CAPS/
>
> Regards,
> Jonathan Taylor.
> University of Toronto Botany Department.
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