Use stable opt paths
opencv: broaden python support

Python lib and Headers directory missing from Anaconda.

Closes #843.
CONTRIBUTING: fix notes link, cleanup
opencv: support Python versions
nextflow 0.8.5

Add new :java dependency.

Closes #1068.
vislcg3: 0.9.8.10063 (new formula)

Closes #1120.
vislcg3: access Formula for path

Avoid hard-coding /usr/local prefix.
r: Fix the build for Linuxbrew
mira: google-perftools is recommended
mira: Fix test
beast: Fix naming of directory in HEAD install.

Closes #1123.
vips 7.40.5

7.40.5 has some very useful improvements to vipsthumbnail and to
openslide support

Closes #1122.
platanus 1.2.1: New formula

Genome assembler for highly heterozygous samples and large genomes.
nextflow 0.9.0
Mumps: fix doc+examples install location.
jellyfish-1.1 1.1.11: New formula

Kat depends on jellyfish 1.1.
kat 1.0.5: New formula

KAT is a suite of tools that analyse jellyfish kmer hashes.
quake 0.3: New formula

Quake is a package to correct substitution sequencing errors in experiments
with deep coverage (e.g. >15X), specifically intended for Illumina sequencing
reads.
musket 1.1: New formula

Musket is an efficient multistage k-mer based corrector for Illumina short read
data.
rampart 0.9.0: New formula

Rampart is both a pipeline for creating multiple assemblies and a framework for
analysing and comparing them.