TransComb_v.1.0 make error

[shengweima]

this is CMakeLists.txt what I set:
set(BOOST_LIB_DIR /usr/local/boost/lib)

set(BOOST_INCLUDE_DIR /usr/local/boost/include)

set(BAMTOOLS_LIB_DIR /data1/masw/bamtools/lib)

set(BAMTOOLS_INCLUDE_DIR /data1/masw/bamtools/include)

The below is error information

cmake ../src/
-- The C compiler identification is GNU 5.4.0
-- The CXX compiler identification is GNU 5.4.0
-- Check for working C compiler: /usr/bin/cc
-- Check for working C compiler: /usr/bin/cc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Detecting C compile features
-- Detecting C compile features - done
-- Check for working CXX compiler: /usr/bin/c++
-- Check for working CXX compiler: /usr/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Detecting CXX compile features
-- Detecting CXX compile features - done
-- Configuring done
-- Generating done
-- Build files have been written to: /data1/masw/TransComb_v.1.0/build
[masw@bioinfo build]$ ls  
CMakeCache.txt  CMakeFiles  Makefile  cmake_install.cmake
[masw@bioinfo build]$ make
Scanning dependencies of target Assemble
[ 14%] Building CXX object CMakeFiles/Assemble.dir/Graph_strand.cc.o
In file included from /data1/masw/TransComb_v.1.0/src/expression_level.h:12:0,
                 from /data1/masw/TransComb_v.1.0/src/describe_graph.h:1,
                 from /data1/masw/TransComb_v.1.0/src/process.h:10,
                 from /data1/masw/TransComb_v.1.0/src/Graph_strand.cc:10:
/data1/masw/TransComb_v.1.0/src/QuadProg++.cc: In function 'void cholesky_decomposition(double (*)[500], int)':
/data1/masw/TransComb_v.1.0/src/QuadProg++.cc:661:28: warning: deprecated conversion from string constant to 'char*' [-Wwrite-strings]
      print_matrix("A", A, n);
                            ^
[ 28%] Linking CXX executable Assemble
[ 28%] Built target Assemble
Scanning dependencies of target Pre_Alignment
[ 42%] Building CXX object CMakeFiles/Pre_Alignment.dir/Pre_Alignment.cc.o
[ 57%] Building CXX object CMakeFiles/Pre_Alignment.dir/assembler.cpp.o
[ 71%] Linking CXX executable Pre_Alignment
CMakeFiles/Pre_Alignment.dir/assembler.cpp.o: In function `Assembler::writeUniqueReads(BamTools::BamWriter*, std::multimap<unsigned int, BamTools::BamAlignment*, std::less<unsigned int>, std::allocator<std::pair<unsigned int const, BamTools::BamAlignment*> > >*, std::map<unsigned int, std::tr1::unordered_map<Assembler::ReadId, BamTools::BamAlignment*, Assembler::ReadIdHasher, std::equal_to<Assembler::ReadId>, std::allocator<std::pair<Assembler::ReadId const, BamTools::BamAlignment*> > >, std::less<unsigned int>, std::allocator<std::pair<unsigned int const, std::tr1::unordered_map<Assembler::ReadId, BamTools::BamAlignment*, Assembler::ReadIdHasher, std::equal_to<Assembler::ReadId>, std::allocator<std::pair<Assembler::ReadId const, BamTools::BamAlignment*> > > > > >*)':
assembler.cpp:(.text+0x6b0): undefined reference to `BamTools::BamAlignment::FindTag(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*&, unsigned int const&, unsigned int&) const'
assembler.cpp:(.text+0x892): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
assembler.cpp:(.text+0x984): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
assembler.cpp:(.text+0xa20): undefined reference to `BamTools::BamAlignment::FindTag(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*&, unsigned int const&, unsigned int&) const'
assembler.cpp:(.text+0xb24): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
assembler.cpp:(.text+0xc13): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
CMakeFiles/Pre_Alignment.dir/assembler.cpp.o: In function `Assembler::generateSpliceGraphs()':
assembler.cpp:(.text+0x3468): undefined reference to `BamTools::BamReader::Open(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&)'
assembler.cpp:(.text+0x384c): undefined reference to `BamTools::BamWriter::Open(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, BamTools::SamHeader const&, std::vector<BamTools::RefData, std::allocator<BamTools::RefData> > const&)'
assembler.cpp:(.text+0x3bcf): undefined reference to `BamTools::BamWriter::Open(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, BamTools::SamHeader const&, std::vector<BamTools::RefData, std::allocator<BamTools::RefData> > const&)'
assembler.cpp:(.text+0x3c09): undefined reference to `BamTools::BamWriter::Open(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, BamTools::SamHeader const&, std::vector<BamTools::RefData, std::allocator<BamTools::RefData> > const&)'
CMakeFiles/Pre_Alignment.dir/assembler.cpp.o: In function `bool BamTools::BamAlignment::GetTag<unsigned int>(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, unsigned int&) const':
assembler.cpp:(.text._ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_[_ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_]+0x55): undefined reference to `BamTools::BamAlignment::FindTag(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, char*&, unsigned int const&, unsigned int&) const'
assembler.cpp:(.text._ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_[_ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_]+0xe2): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
assembler.cpp:(.text._ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_[_ZNK8BamTools12BamAlignment6GetTagIjEEbRKNSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEERT_]+0x203): undefined reference to `BamTools::BamAlignment::SetErrorString(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const'
collect2: error: ld returned 1 exit status
make[2]: *** [Pre_Alignment] Error 1
make[1]: *** [CMakeFiles/Pre_Alignment.dir/all] Error 2
make: *** [all] Error 2

[Patrick Douglas Corrêa Pereira]

Just install Boost "boost_1_70_0" instead "boost_1_47_0" as decribed in README
Fixed for me
Linux Mint 18.3