Install.Readme

make sure:
   a.   libhts / htslib (>=1.12) had done ( http://www.htslib.org/download/)
   b.   gcc/g++  ver  >= 4.8  // support Flag [ --std=c++11 ]

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Only two step :

1  ./configure
   #  you can usr the  usr the  LDFLAGS  to find the htslib library and CXXFLAGS and CFLAGS to find the htslib header
   #  ./configure LDFLAGS=-L/usr/lib/  CFLAGS="-I/usr/include/"  CXXFLAGS="-I/usr/include/"
   #  Export LIBRARY/CFLAGS/CXXFLAGS environment variables to set the htslib path also can be a way to compile, such : export LD_LIBRARY_PATH=/usr/lib:$LD_LIBRARY_PATH

2   make


Note if it can't work . follow below  B1-B6  or use the  static Compiled [BamDeal_Linux ] 

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 #autoscan ./
 #cp configure.scan configure.ac

# if can't work,  follow below 6  commands
B1:     aclocal             #//   src/automake-1.9/aclocal
B2:     autoconf            #//   src/automake-1.9/autoconf
B3:     autoheader          #//   src/automake-1.9/autoheader 
B4:     automake --add-missing   #//  src/automake-1.9/automake  --add-missing 
B5:      ./configure     
B6:      make 
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#swimming in the sky & flying in the sea#