petsc: bump revision for open-mpi

Fixes #1511.

Closes #1512.

Signed-off-by: Ian Lancaster <ilancaster@gmail.com>
petsc: update 3.5.2_2 bottle.
novoalign 3.02.10

Closes #1446
novoalign 3.02.10: Change single quotes to double

Closes #1514.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
novoalign: add 3.02.10 bottle.
opencv 2.4.9: Fix for Linuxbrew

Closes #1422.
Closes #1516.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
bwa 0.7.10: Change single quotes to double quotes

Closes #1519.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
bwa: add 0.7.10 bottle.
bwa 0.7.11

Closes #1520.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
bwa: update 0.7.11 bottle.
nxtrim 0.3.0: New formula

Software to remove Nextera Mate Pair adapters and categorise reads
according to the orientation implied by the adapter location.

Closes #1515.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
nxtrim: add 0.3.0 bottle.
nxtrim 0.3.0: Add head
mumps: bump revision for open-mpi

Closes #1521.

Signed-off-by: Ian Lancaster <ilancaster@gmail.com>
mumps: update 4.10.0_2 bottle.
consed 28.0

Closes #1522.

Signed-off-by: Shaun Jackman <sjackman@gmail.com>
OpenCV: Add CMake flag for Jasper.

Fixes #1523.
Closes #1524.
README.md: general updates, cleanup.
ASL: version 20141223.

Fixes #1526.
Closes #1527.
CppAD: v20141101 and IPOPT dependency.

Closes #1509.