cwarden45/general-pacbio repository overview

Everything in cwarden45/genomics-base plus:

cmake (v3.5.1) biopython (v1.69) boost libraries (v1.61.0, in /usr/include/boost) pitchfork (downloaded 7/14/2016) HDF5 libraries (v.1.8.16, in /opt/pitchfork/workspace/hdf5-1.8.16) BLASR (v5.2.3194382, set in $PATH as blasr) GMAP/GSNAP (v2016-08-24, set in $PATH as gmap,gmap_build, and gsnap) pbccs (v2.0.0, set in $PATH as ccs) unanimity (v3.0.0, /opt/unanimity/build/ccs) pbh5tools (v0.8.0, bash5tools.py and cmph5tools.py in $PATH) pbcore (v1.2.10) kineticsTools (v0.5.3, ipdSummary set in $PATH) pbbarcode (v0.8.0, pbbarcode set in $PATH) bamtools (v2.4.1, /opt/bamtools/bin/bamtools) Canu (v1.5, /opt/canu-1.5/Linux-amd64/bin/canu)