beast 1.7.5: New formula

BEAST is a cross-platform program for Bayesian MCMC analysis of
molecular sequences. It is entirely orientated towards rooted,
time-measured phylogenies inferred using strict or relaxed molecular
clock models. It can be used as a method of reconstructing phylogenies
but is also a framework for testing evolutionary hypotheses without
conditioning on a single tree topology. BEAST uses MCMC to average
over tree space, so that each tree is weighted proportional to its
posterior probability. We include a simple to use user-interface
program for setting up standard analyses and a suit of programs for
analysing the results.

Closes #175
beast 1.8

Closes #503
blast: Fix the conflict with proj

Install the static libraries in libexec.

Closes #174
blast: Fails with clang

error: 'bits/c++config.h' file not found
Updated pastix to 5.2.2

Closes #532.
root: remove bottle code

Fixes #535.
Add a formula for installing UTGB Toolkit

Closes #526.
Update Mathomatic URL and add devel link.

Fixes #290.
Update sllib to 1.4.2f.
Upgrade wcslib to 4.19.
libgtextutils: Now a subformula of fastx_toolkit

Remove libgtextutils and make it a subformula of fastx_toolkit.
fastx_toolkit is the only formula that requires libgtextutils.
fastx_toolkit: Fails with clang

Closes #432
Simplify MPI dependency in lammps.
amos: Fails with clang

genome-complexity-fast.cc:21:54:
error: reference to 'hash' is ambiguous
note: candidate found by name lookup is 'std::__1::hash'
note: candidate found by name lookup is '__gnu_cxx::hash'

Closes #485
ucsc-genome-browser: Fix the mysql include path

Change
"MYSQLINC=#{HOMEBREW_PREFIX}/include"
to
"MYSQLINC=#{HOMEBREW_PREFIX}/include/mysql"
ucsc-genome-browser 292
fastx_toolkit: Add HEAD

Closes #536
beast 1.8.0: Fix directory reference in HEAD

Closes #538
Changed CMake options for enabling Qt support.

Closes #530.
Upate vigra to 10.0.

- Add checks at build time
- Optionally depend on hdf5 and Python.