#What is blasr_libcpp#

Blasr_libcpp is a library used by blasr and other executables such as samtoh5, loadPulses for analyzing PacBio sequences. This library contains three sub-libraries, including pbdata, hdf and alignment:

• pbdata
  • contains source code for handling Pacbio sequences and can build lib libpbdata.
• hdf
  • contains source code for handling Pacbio hdf5 files (e.g., *.pls.h5, *.rgn.h5, *.bas.h5) and builds libpbhdf.
• alignment
  • contains source code for aligning Pacbio reads to target sequences used in blasr and builds libblasr.

For more information, see

• https://github.com/PacificBiosciences/blasr_libcpp/wiki

The simplest way is:

NOPBBAM=1 ./configure.py
make -j all

That will skip pbbam, and it will download HDF5 headers.