muscle: replace patch containing CRLF
arpack: improved BLAS support (both openBLAS and vecLib)

Closes #768.
nlopt: fix audit warnings
fastq-tools 0.6 (new formula)

Add formula for Daniel Jones's FASTQ processing toolkit, fastq-tools

Closes #769.
blast 2.2.29

Release Notes: http://www.ncbi.nlm.nih.gov/books/NBK131777/
Merge branch 'upstream' into veclibfort