Commits on Oct 31, 2019

1. Convert uses of legacy samtools API to use HTSlib API instead …

   Change to include htslib/*.h headers; use HTSlib-style type and
   function names; use sam_hdr_read() and pass bam_hdr_t headers
   explicitly to sam_read1().
   
   Remove references to libbam.a and don't build it. The only remaining
   use of submodules/samtools is in the install-samtools rule.
   
   Use HTSlib's kseq.h instead of a local copy.

   

   jmarshall committed Oct 31, 2019
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