viennarna 2.1.6
wcslib 4.20

Closes #606.
vtk 6.1

Removed the patches which were merged for the 6.1 release.
Removed freetype, fails with latest freetype versions.

Closes #641.
ucsc-genome-browser 295
lammps 2014.02.12

Closes #675.
New Formula: graph-tool 2.2.29.1. HEAD

Closes #565.
mafft 7.130
libgpkg 0.9.15 (new formula)

SQLite3 extension for OGC GeoPackage implementation
see: http://www.ogcnetwork.net/geopackage

Closes #599.
libgpkg: fix missing spaces in caveats
nonpareil 2.303

The sha1 was updated to v2.303 and the “version” test was replaced by a
meaningful test with mock sequences.

Closes #671.
picard-tools 1.107
cgns 3.2.1
bowtie2 2.2.0

Handle bowtie2 being a relative symlink.
Install documents.
Jellyfish: upgrade to 2.0.

Add appropriate `fails_with` statements.

Closes #680
bowtie2: Add head
armadillo 4.000.4
Scalapack: add option to skip tests.
edirect 1.00: New formula

Entrez Direct, the Entrez utilities on the UNIX command line
abyss: use spec deps
beast: use spec deps