gmcloser 1.2: New formula
opencv 2.4.8.2

Set proper paths for python and openni. Build requires ant.

Closes #622. Closes #681.
opencv: move openni option inside block
bamutil 1.0.11
allpaths-lg: fix url

Add fails_with for GCC >=4.7 requirement.

Closes #361.
analysis 0.8.4

Closes #718.
wcstools 3.8.7 (new formula)

Closes #717.
Update R formula to 3.03

R version 3.0.3 (Warm Puppy) has been released on 2014-03-06.
See http://cran.r-project.org/src/base/NEWS.html

Closes #720.
htslib 0.2.0-rc6
samtools 0.2.0-rc6 devel
htslib: Install version.h
bcftools 0.2.0-rc6: New formula
samtools: Add option --without-bcftools

Closes #550
bcftools: Tidy up the formula
NetCDF: update to 4.3.1.1

- remove patch -- this has been merged upstream
- disable the DAP remote tests.

Closes #719.
igv 2.3.31
celera-assembler 8.1: Fails to build with clang

error: use of undeclared identifier 'use_safe_malloc_instead'

Closes #573
celera-assembler: Add a comment mentioning head

Head doesn't build, because the 'kmer' direction is missing.
tophat 2.0.11
genometools 1.5.1: New formula

Genometools is a genome analysis system that consists of a free
collection of bioinformatics tools (in the realm of genome
informatics) combined into a single binary named gt. It is based
on a C library named “libgenometools” which consists of several modules.

Closes #662