This is not really a license per se, but a copy of the e-mail from
Ziheng Yang giving us permission to include his source code in the
EVOLVE distribution. Questions regarding the license specifics for
this module should be addressed to ziheng at the e-mail address
below.

Gavin Huttley
24/06/2003

==================================================================

Subject: Re: Matrix exp
Date: Wednesday, 28 May 2003 5:48 PM
From: Ziheng Yang <z.yang@ucl.ac.uk>
To: Gavin Huttley <gavin.huttley@anu.edu.au>

Hi Gavin,

You have my permission to use the codes for matrix exponential and eigen
calculation.  I won't take any responsibility for any errors in the source
code.

Are you using the code for a symmetrical real matrix (or for a
reversible-process rate matrix) as well?

Best,
Ziheng




At 16:46 28/05/2003 +1000, Gavin Huttley wrote:
>Hi Ziheng:
>
>I'm following up from my previous request for instructions on how to use
>your matrix exponential code. It helped us to solve our problem (which were
>simple coding errors on my part). I'd now like to get your permission to
>distribute the same matrix exponential source-code with our software.
>
>A bit of background on the software. It is basically molecular evolutionary
>modelling software, in the spirit of PAML, PAL and HYPHY. It is being
>developed with the aim of serving as both a development toolkit and
>evolutionary modelling package. We have implemented the software as a module
>to the scripting language Python. The computationally intensive bits are
>written in either C or C++, with a bit of Fortran thrown in (although we aim
>to recode that optimiser in one of the other languages when we get time).
>Aside from the mentioned Fortran code and your and Tiang Wen's eigen code,
>everything has been written from scratch. We intend to release an alpha
>version of the software under the GPL sometime in the next month or so (I'll
>be presenting a poster on it at ISMB in Brisbane next month). At present the
>software has no real name (although it's called EVOLVE in the poster
>abstract).
>
>look forward to hearing from you.
>
>cheers,
>
>gavin