ensembl-tools: update sha1

Catch up with latest changes to release/75 branch.
Add caveat to ammend PERL5LIB with libexec.
lumpy-sv 0.2.0

Also removes GSL dependency and patch, simplifying build.

Closes #812.
radx 20140401
Add contributing guidelines to root.
New formula: Lis 1.4.34

Closes #806.
augustus: Fails to build with clang 503

Closes #818
radx: hdf5 must be built with cxx

Closes #816.
delly 0.3.3

Add option to install 64-bit binary on Linux.

Closes #813.
R 3.1.0

R 3.1.0 (codename "Spring Dance") was released April 10, 2014.

More information at:
https://stat.ethz.ch/pipermail/r-announce/2014/000572.html

Closes #815.
Closes #821.
bedops 2.4.2

Closes #820.
bowtie 1.0.1
graph-tool 2.2.31

Closes #802.
insighttoolkit 4.5.2

Closes #824.
bowtie2 2.2.2
hotspot 4.1.0

Closes #827
ucsc-genome-browser 298
scarpa 0.241: New formula

Scarpa is a stand-alone scaffolding tool for NGS data. It can be used
together with virtually any genome assembler and any NGS read mapper
that supports SAM format.
snpeff 3.5h
igvtools 2.3.32
R: link with Accelerate framework

By default R should link against the Accelerate framework.

Closes #825.