veclibfort: update to 0.4.2

vecLibFort now works with Leopard, even PPC Leopard. This has been accomplished without breaking compatibility with newer versions of OSX.

Closes #1232.
opencv: fix CUDA support

Closes #1228.
Closes #970.
Fixes #1182.
mrbayes: comment out ENV setting with mpi

open-mpi has been updated to 1.8, which doesn't use llvm-gcc to do
compiling the comment about the hang doesn't apply anymore.

Closes #1226.
ASL: 20141004

Closes #1237.
osgearth: build open-scene-graph with Qt

Fixes #1238.
edirect: update sha1
vips 7.40.11

Closes #1239.
fsa 1.15.9: New formula

FSA is a probabilistic multiple sequence alignment algorithm which uses a
distance-based approach to aligning homologous protein, RNA or DNA sequences.
blast 2.2.29: Fails to build with clang build 600

Closes #1078
pcl: add patch for boost 1.56

Enables cloud_composer and point_cloud_editor
Using WITH_QT to disable qt support

Closes #1241.
octave: build with clang 3.5

Fixes #1193.
Closes #1246.
bowtie 1.1.1

Closes #1245.
root 5.34.22

Closes #1247.
New formula: cvblob

Closes #1225.
exonerate 2.2.0: Fix undefined reference error
ssake: update sha1

Closes #1260.
tasr: update sha1

Closes #1259.
hlaminer: update sha1

Closes #1258.
r: Link libraries, headers, & frameworks

Link headers, libraries, & framework into normal locations on OS X
to allow other software to easily find them implicitly rather than
needing an explicit path upon compilation.

Prefer install_symlink over ln_s

Closes #1261.
octave: use opt lib path