failed in compilation

[lmanchon]

-- Build type: Release
-- Installation prefix: /home/octopus/bin
-- Linking against boost dynamic libraries
-- Boost include dir: /home/BOOST/include
-- Boost libraries: /home/BOOST/lib/libboost_system.so/home/BOOST/lib/libboost_filesystem.so/home/BOOST/lib/libboost_program_options.so/home/BOOST/lib/libboost_date_time.so/home/BOOST/lib/libboost_log_setup.so/home/BOOST/lib/libboost_log.so/home/BOOST/lib/libboost_iostreams.so/home/BOOST/lib/libboost_timer.so/home/BOOST/lib/libboost_thread.so-pthread/home/BOOST/lib/libboost_regex.so/home/BOOST/lib/libboost_chrono.so/home/BOOST/lib/libboost_atomic.so
-- GMP_INCLUDES=/usr/include
-- GMP include dir: /usr/include
-- GMP libraries: /usr/lib64/libgmp.so
-- Found HTSlib
-- HTSlib include dirs: /home/HTSLIB/include
-- HTSlib libraries: /home/HTSLIB/lib
-- IPO is supported!
-- Configuring done
WARNING: Target "octopus" requests linking to directory "/home/HTSLIB/lib". Targets may link only to libraries. CMake is dropping the item.
-- Generating done
-- Build files have been written to: /home/octopus/build
[ 2%] Built target libdivsufsort
[ 3%] Built target tandem
[ 8%] Built target ranger
[ 8%] Built target date-tz
[ 9%] Linking CXX executable octopus
/tmp/octopus.6n0HcM.ltrans41.ltrans.o: In function octopus::io::BufferedReadWriter<octopus::AnnotatedAlignedRead>::flush()': <artificial>:(.text+0x84e9): undefined reference to bam_init1'
:(.text+0x8515): undefined reference to sam_write1' <artificial>:(.text+0x8525): undefined reference to bam_destroy1'
:(.text+0x85c1): undefined reference to bam_init1' <artificial>:(.text+0x85ed): undefined reference to sam_write1'
:(.text+0x85fd): undefined reference to bam_destroy1' <artificial>:(.text+0x8687): undefined reference to bam_init1'
:(.text+0x86b3): undefined reference to sam_write1' <artificial>:(.text+0x86c3): undefined reference to bam_destroy1'
:(.text+0x871b): undefined reference to bam_init1' <artificial>:(.text+0x8747): undefined reference to sam_write1'
:(.text+0x8757): undefined reference to bam_destroy1' /tmp/octopus.6n0HcM.ltrans41.ltrans.o: In function void octopus::io::BufferedReadWriteroctopus::AnnotatedAlignedRead::write<std::vector<octopus::AnnotatedAlignedRead, std::allocatoroctopus::AnnotatedAlignedRead > >(std::vector<octopus::AnnotatedAlignedRead, std::allocatoroctopus::AnnotatedAlignedRead >)':
:(.text+0x8ebd): undefined reference to bam_init1' <artificial>:(.text+0x8ee7): undefined reference to sam_write1'
:(.text+0x8efe): undefined reference to bam_destroy1' <artificial>:(.text+0x906e): undefined reference to bam_init1'
:(.text+0x9098): undefined reference to sam_write1' <artificial>:(.text+0x90af): undefined reference to bam_destroy1'
:(.text+0x911f): undefined reference to bam_init1' <artificial>:(.text+0x9149): undefined reference to sam_write1'
:(.text+0x9160): undefined reference to bam_destroy1' <artificial>:(.text+0x91ae): undefined reference to bam_init1'
:(.text+0x91d8): undefined reference to sam_write1' <artificial>:(.text+0x91ef): undefined reference to bam_destroy1'
/tmp/octopus.6n0HcM.ltrans41.ltrans.o: In function octopus::io::BufferedReadWriter<octopus::AnnotatedAlignedRead>::flush() [clone .cold]': <artificial>:(.text.unlikely+0x683): undefined reference to bam_destroy1'
/tmp/octopus.6n0HcM.ltrans41.ltrans.o: In function void octopus::io::BufferedReadWriter<octopus::AnnotatedAlignedRead>::write<std::vector<octopus::AnnotatedAlignedRead, std::allocator<octopus::AnnotatedAlignedRead> > >(std::vector<octopus::AnnotatedAlignedRead, std::allocator<octopus::AnnotatedAlignedRead> >) [clone .cold]': <artificial>:(.text.unlikely+0x897): undefined reference to bam_destroy1'
/tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::VcfWriter::close()': <artificial>:(.text+0x2351): undefined reference to bcf_hdr_destroy'
:(.text+0x235f): undefined reference to hts_close' /tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::VcfWriter::VcfWriter(octopus::VcfWriter&&)':
:(.text+0x2486): undefined reference to bcf_hdr_destroy' <artificial>:(.text+0x2494): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::index_vcf(boost::filesystem::path const&)': <artificial>:(.text+0x3ae4): undefined reference to hts_open'
:(.text+0x3af8): undefined reference to hts_get_format' <artificial>:(.text+0x3b04): undefined reference to hts_close'
:(.text+0x3b12): undefined reference to tbx_conf_vcf' <artificial>:(.text+0x3b19): undefined reference to tbx_index_build'
:(.text+0x3b39): undefined reference to bcf_index_build' /tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::VcfWriter::~VcfWriter()':
:(.text+0x3c45): undefined reference to bcf_hdr_destroy' <artificial>:(.text+0x3c53): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::VcfWriter::open(bool)': <artificial>:(.text+0xc3c2): undefined reference to bcf_hdr_destroy'
:(.text+0xc3d0): undefined reference to hts_close' /tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::(anonymous namespace)::make_vcf_writer(boost::optionalboost::filesystem::path) [clone .lto_priv.0]':
:(.text+0xc4fb): undefined reference to hts_open' <artificial>:(.text+0xc509): undefined reference to bcf_hdr_init'
/tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::VcfWriter::VcfWriter(boost::filesystem::path)': <artificial>:(.text+0xc850): undefined reference to bcf_hdr_destroy'
:(.text+0xc85f): undefined reference to hts_close' <artificial>:(.text+0xc8bf): undefined reference to bcf_hdr_destroy'
:(.text+0xc8ce): undefined reference to hts_close' /tmp/octopus.6n0HcM.ltrans118.ltrans.o: In function octopus::(anonymous namespace)::make_vcf_writer(boost::optionalboost::filesystem::path) [clone .lto_priv.0] [clone .cold]':
:(.text.unlikely+0x132e): undefined reference to bcf_hdr_destroy' <artificial>:(.text.unlikely+0x133c): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function std::_Sp_counted_deleter<bcf_srs_t*, octopus::HtslibBcfFacade::HtsSrsDeleter, std::allocator<void>, (__gnu_cxx::_Lock_policy)2>::_M_dispose()': <artificial>:(.text+0x1179): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::~HtslibBcfFacade()': <artificial>:(.text+0x11e8): undefined reference to bcf_hdr_destroy'
:(.text+0x11f7): undefined reference to hts_close' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::~HtslibBcfFacade() [clone .lto_priv.0]':
:(.text+0x367f): undefined reference to bcf_hdr_destroy' <artificial>:(.text+0x368d): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records(octopus::GenomicRegion const&) const': <artificial>:(.text+0x4d61): undefined reference to bcf_sr_init'
:(.text+0x4d80): undefined reference to bcf_sr_set_regions' <artificial>:(.text+0x4dab): undefined reference to bcf_sr_add_reader'
:(.text+0x4dc7): undefined reference to bcf_sr_next_line' <artificial>:(.text+0x4dd8): undefined reference to bcf_sr_destroy'
:(.text+0x4e05): undefined reference to bcf_hdr_get_hrec' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&) const':
:(.text+0x4e4e): undefined reference to bcf_sr_init' <artificial>:(.text+0x4e5f): undefined reference to bcf_sr_set_regions'
:(.text+0x4e70): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x4e8f): undefined reference to bcf_sr_next_line'
:(.text+0x4ea0): undefined reference to bcf_sr_destroy' <artificial>:(.text+0x4ecd): undefined reference to bcf_hdr_get_hrec'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records() const': <artificial>:(.text+0x4efd): undefined reference to bcf_sr_init'
:(.text+0x4f0d): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x4f27): undefined reference to bcf_sr_next_line'
:(.text+0x4f38): undefined reference to bcf_sr_destroy' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function ZSt9transformIPfSt20back_insert_iteratorISt6vectorINSt7__cxx1112basic_stringIcSt11char_traitsIcESaIcEEESaIS8_EEEZN7octopus12extract_infoEPK9bcf_hdr_tP6bcf1_tRNSC_9VcfRecord7BuilderEEUlT_E0_ET0_SL_SL_SN_T1.isra.0':
:(.text+0x4f82): undefined reference to bcf_float_missing' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_record(bcf_srs_t const*, octopus::IVcfReaderImpl::UnpackPolicy) const':
:(.text+0x514a): undefined reference to bcf_unpack' <artificial>:(.text+0x5549): undefined reference to bcf_get_info_values'
:(.text+0x5795): undefined reference to bcf_get_info_values' <artificial>:(.text+0x5862): undefined reference to bcf_get_info_values'
:(.text+0x58f9): undefined reference to bcf_get_info_values' <artificial>:(.text+0x631c): undefined reference to bcf_hdr_id2int'
:(.text+0x6604): undefined reference to bcf_get_format_values' <artificial>:(.text+0x6731): undefined reference to bcf_get_format_string'
:(.text+0x67c7): undefined reference to bcf_get_format_values' <artificial>:(.text+0x6883): undefined reference to bcf_float_vector_end'
:(.text+0x6a3b): undefined reference to bcf_get_format_values' <artificial>:(.text+0x6f62): undefined reference to bcf_float_vector_end'
:(.text+0x6f92): undefined reference to bcf_float_vector_end' <artificial>:(.text+0x6faa): undefined reference to bcf_float_vector_end'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(bcf_srs_t*, octopus::IVcfReaderImpl::UnpackPolicy, unsigned long) const': <artificial>:(.text+0x71b0): undefined reference to bcf_sr_next_line'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(octopus::GenomicRegion const&, octopus::IVcfReaderImpl::UnpackPolicy) const': <artificial>:(.text+0x7234): undefined reference to bcf_sr_init'
:(.text+0x7250): undefined reference to bcf_sr_set_regions' <artificial>:(.text+0x7264): undefined reference to bcf_sr_add_reader'
:(.text+0x72a1): undefined reference to bcf_sr_destroy' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, octopus::IVcfReaderImpl::UnpackPolicy) const':
:(.text+0x7314): undefined reference to bcf_sr_init' <artificial>:(.text+0x7325): undefined reference to bcf_sr_set_regions'
:(.text+0x7339): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x7363): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(octopus::IVcfReaderImpl::UnpackPolicy) const': <artificial>:(.text+0x73c4): undefined reference to bcf_sr_init'
:(.text+0x73d3): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x73fd): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::RecordIterator::next()': <artificial>:(.text+0x7430): undefined reference to bcf_sr_next_line'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::RecordIterator::RecordIterator(octopus::HtslibBcfFacade const&, std::unique_ptr<bcf_srs_t, octopus::HtslibBcfFacade::HtsSrsDeleter>, octopus::IVcfReaderImpl::UnpackPolicy)': <artificial>:(.text+0x751f): undefined reference to bcf_sr_next_line'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::iterate(octopus::GenomicRegion const&, octopus::IVcfReaderImpl::UnpackPolicy) const': <artificial>:(.text+0x761a): undefined reference to bcf_sr_init'
:(.text+0x7636): undefined reference to bcf_sr_set_regions' <artificial>:(.text+0x764a): undefined reference to bcf_sr_add_reader'
:(.text+0x76bf): undefined reference to bcf_sr_destroy' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::iterate(std::__cxx11::basic_string<char, std::char_traits, std::allocator > const&, octopus::IVcfReaderImpl::UnpackPolicy) const':
:(.text+0x773a): undefined reference to bcf_sr_init' <artificial>:(.text+0x774b): undefined reference to bcf_sr_set_regions'
:(.text+0x775f): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x77d0): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::iterate(octopus::IVcfReaderImpl::UnpackPolicy) const': <artificial>:(.text+0x7827): undefined reference to bcf_sr_init'
:(.text+0x7836): undefined reference to bcf_sr_add_reader' <artificial>:(.text+0x78a7): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::set_samples(bcf_hdr_t const*, bcf1_t*, octopus::VcfRecord const&, std::vector<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> >, std::allocator<std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > > > const&)': <artificial>:(.text+0x7ddc): undefined reference to bcf_update_format'
:(.text+0x8031): undefined reference to bcf_hdr_id2int' <artificial>:(.text+0x893b): undefined reference to bcf_update_format_string'
:(.text+0x8cdc): undefined reference to bcf_float_missing' <artificial>:(.text+0x8cfc): undefined reference to bcf_float_vector_end'
:(.text+0x9362): undefined reference to bcf_update_format' <artificial>:(.text+0x9504): undefined reference to bcf_update_format'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::set_info(bcf_hdr_t const*, bcf1_t*, octopus::VcfRecord const&)': <artificial>:(.text+0x9cd8): undefined reference to bcf_hdr_id2int'
:(.text+0x9e38): undefined reference to bcf_update_info' <artificial>:(.text+0x9ffa): undefined reference to bcf_update_info'
:(.text+0xa14a): undefined reference to bcf_float_missing' <artificial>:(.text+0xa271): undefined reference to bcf_update_info'
:(.text+0xa2a3): undefined reference to bcf_update_info' /tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::write(octopus::VcfRecord const&)':
:(.text+0xa4a4): undefined reference to bcf_hdr_get_hrec' <artificial>:(.text+0xa4b2): undefined reference to bcf_init'
:(.text+0xa4c7): undefined reference to bcf_hdr_id2int' <artificial>:(.text+0xa680): undefined reference to bcf_update_alleles'
:(.text+0xa6d2): undefined reference to bcf_hdr_id2int' <artificial>:(.text+0xa6df): undefined reference to bcf_add_filter'
:(.text+0xa717): undefined reference to bcf_write' <artificial>:(.text+0xa727): undefined reference to bcf_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_header() const': <artificial>:(.text+0xffca): undefined reference to bcf_hdr_get_version'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::write(octopus::VcfHeader const&)': <artificial>:(.text+0x1063c): undefined reference to bcf_hdr_init'
:(.text+0x10651): undefined reference to bcf_hdr_set_version' <artificial>:(.text+0x10724): undefined reference to bcf_hdr_add_hrec'
:(.text+0x115b1): undefined reference to bcf_hdr_add_hrec' <artificial>:(.text+0x117f3): undefined reference to bcf_hdr_add_sample'
:(.text+0x1180b): undefined reference to bcf_hdr_write' <artificial>:(.text+0x1182f): undefined reference to bcf_hdr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records(octopus::GenomicRegion const&) const [clone .cold]': <artificial>:(.text.unlikely+0x874): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&) const [clone .cold]': <artificial>:(.text.unlikely+0x9f1): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::count_records() const [clone .cold]': <artificial>:(.text.unlikely+0xb11): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(octopus::GenomicRegion const&, octopus::IVcfReaderImpl::UnpackPolicy) const [clone .cold]': <artificial>:(.text.unlikely+0xf3c): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o: In function octopus::HtslibBcfFacade::fetch_records(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, octopus::IVcfReaderImpl::UnpackPolicy) const [clone .cold]': <artificial>:(.text.unlikely+0x10b2): undefined reference to bcf_sr_destroy'
/tmp/octopus.6n0HcM.ltrans119.ltrans.o::(.text.unlikely+0x11b4): more undefined references to bcf_sr_destroy' follow /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function sam_itr_next':
:(.text+0x1762): undefined reference to hts_log' <artificial>:(.text+0x1782): undefined reference to hts_log'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibIterator::~HtslibIterator()': <artificial>:(.text+0x179e): undefined reference to bam_destroy1'
:(.text+0x17ac): undefined reference to hts_itr_destroy' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::close()':
:(.text+0x19f6): undefined reference to hts_close' <artificial>:(.text+0x1a0c): undefined reference to sam_hdr_destroy'
:(.text+0x1a22): undefined reference to hts_idx_destroy' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::open()':
:(.text+0x1a3e): undefined reference to hts_open' <artificial>:(.text+0x1a56): undefined reference to hts_close'
:(.text+0x1a64): undefined reference to sam_hdr_read' <artificial>:(.text+0x1a76): undefined reference to sam_hdr_destroy'
:(.text+0x1a83): undefined reference to sam_index_load' <artificial>:(.text+0x1a95): undefined reference to hts_idx_destroy'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibIterator::read_group[abi:cxx11]() const': <artificial>:(.text+0x1eba): undefined reference to bam_aux_get'
:(.text+0x1ecb): undefined reference to bam_aux2Z' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::write(octopus::AnnotatedAlignedRead const&, bam1_t*) const':
:(.text+0x434b): undefined reference to bam_aux_update_str' <artificial>:(.text+0x4681): undefined reference to bam_aux_update_str'
:(.text+0x46a4): undefined reference to bam_aux_update_str' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibIterator::HtslibIterator(octopus::io::HtslibSamFacade const&, octopus::GenomicRegion const&)':
:(.text+0x4796): undefined reference to sam_itr_querys' <artificial>:(.text+0x47d0): undefined reference to bam_init1'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::has_reads(octopus::GenomicRegion const&) const': <artificial>:(.text+0x486d): undefined reference to bam_destroy1'
:(.text+0x487c): undefined reference to hts_itr_destroy' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::count_reads(octopus::GenomicRegion const&) const':
:(.text+0x4a13): undefined reference to hts_itr_next' <artificial>:(.text+0x4a45): undefined reference to hts_itr_multi_next'
:(.text+0x4a5b): undefined reference to bam_destroy1' <artificial>:(.text+0x4a6a): undefined reference to hts_itr_destroy'
:(.text+0x4aa2): undefined reference to hts_log' <artificial>:(.text+0x4abf): undefined reference to hts_log'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::has_reads(std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, octopus::GenomicRegion const&) const': <artificial>:(.text+0x4b4e): undefined reference to hts_itr_next'
:(.text+0x4b9c): undefined reference to hts_itr_multi_next' <artificial>:(.text+0x4c42): undefined reference to hts_log'
:(.text+0x4c5d): undefined reference to hts_log' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::mapped_contigsabi:cxx11 const':
:(.text+0x522f): undefined reference to hts_idx_get_stat' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::extract_read_positions(octopus::GenomicRegion const&, unsigned long) const':
:(.text+0x5743): undefined reference to hts_itr_next' <artificial>:(.text+0x579d): undefined reference to hts_itr_multi_next'
:(.text+0x57f1): undefined reference to hts_log' <artificial>:(.text+0x5809): undefined reference to hts_log'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::HtslibBcfFacade::HtslibBcfFacade(boost::filesystem::path, octopus::HtslibBcfFacade::Mode)': <artificial>:(.text+0x5a72): undefined reference to hts_open'
:(.text+0x5a8a): undefined reference to hts_close' <artificial>:(.text+0x5a9c): undefined reference to bcf_hdr_read'
:(.text+0x5aae): undefined reference to bcf_hdr_destroy' <artificial>:(.text+0x5ac4): undefined reference to hts_close'
:(.text+0x5ad2): undefined reference to hts_open' <artificial>:(.text+0x5ae4): undefined reference to hts_close'
:(.text+0x5b6a): undefined reference to hts_open' <artificial>:(.text+0x5b7c): undefined reference to hts_close'
:(.text+0x5b93): undefined reference to bcf_hdr_init' <artificial>:(.text+0x5ba5): undefined reference to bcf_hdr_destroy'
:(.text+0x5bd7): undefined reference to hts_open' <artificial>:(.text+0x5bef): undefined reference to hts_close'
:(.text+0x5c01): undefined reference to bcf_hdr_read' <artificial>:(.text+0x5c16): undefined reference to bcf_hdr_destroy'
:(.text+0x5c56): undefined reference to bcf_hdr_init' <artificial>:(.text+0x5c6c): undefined reference to bcf_hdr_destroy'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::iterate(octopus::GenomicRegion const&, std::function<bool (std::__cxx11::basic_string<char, std::char_traits<char>, std::allocator<char> > const&, octopus::ContigRegion)>) const': <artificial>:(.text+0x69eb): undefined reference to hts_itr_next'
:(.text+0x6af4): undefined reference to hts_itr_multi_next' <artificial>:(.text+0x6b22): undefined reference to hts_log'
:(.text+0x6b3a): undefined reference to hts_log' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibIterator::operator*() const':
:(.text+0x9827): undefined reference to bam_aux_get' <artificial>:(.text+0x9839): undefined reference to bam_aux2Z'
:(.text+0x9d65): undefined reference to bam_aux_get' <artificial>:(.text+0x9d76): undefined reference to bam_aux2Z'
:(.text+0xa99e): undefined reference to bam_aux_get' <artificial>:(.text+0xa9b0): undefined reference to bam_aux2Z'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::~HtslibSamFacade()': <artificial>:(.text+0xc203): undefined reference to hts_idx_destroy'
:(.text+0xc211): undefined reference to sam_hdr_destroy' <artificial>:(.text+0xc21f): undefined reference to hts_close'
:(.text+0xc252): undefined reference to sam_hdr_destroy' <artificial>:(.text+0xc268): undefined reference to hts_close'
:(.text+0xc273): undefined reference to sam_index_build' <artificial>:(.text+0xc32b): undefined reference to hts_idx_destroy'
:(.text+0xc339): undefined reference to sam_hdr_destroy' <artificial>:(.text+0xc34b): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibSamFacade(boost::filesystem::path)': <artificial>:(.text+0xc6e1): undefined reference to hts_verbose'
:(.text+0xc6ea): undefined reference to hts_open' <artificial>:(.text+0xc6ff): undefined reference to sam_hdr_read'
:(.text+0xc719): undefined reference to sam_index_load' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::ReadManager::has_reads(octopus::GenomicRegion const&) const':
:(.text+0x10d60): undefined reference to bam_destroy1' <artificial>:(.text+0x10d6f): undefined reference to hts_itr_destroy'
:(.text+0x10f9d): undefined reference to hts_itr_next' <artificial>:(.text+0x10fb6): undefined reference to bam_destroy1'
:(.text+0x10fc5): undefined reference to hts_itr_destroy' <artificial>:(.text+0x110f5): undefined reference to hts_itr_next'
:(.text+0x1110e): undefined reference to bam_destroy1' <artificial>:(.text+0x1111d): undefined reference to hts_itr_destroy'
:(.text+0x1124d): undefined reference to hts_itr_next' <artificial>:(.text+0x11266): undefined reference to bam_destroy1'
:(.text+0x11275): undefined reference to hts_itr_destroy' <artificial>:(.text+0x113a5): undefined reference to hts_itr_next'
:(.text+0x113be): undefined reference to bam_destroy1' <artificial>:(.text+0x113cd): undefined reference to hts_itr_destroy'
:(.text+0x11484): undefined reference to hts_itr_multi_next' <artificial>:(.text+0x11494): undefined reference to hts_itr_multi_next'
:(.text+0x114b4): undefined reference to hts_itr_multi_next' <artificial>:(.text+0x114d4): undefined reference to hts_itr_multi_next'
:(.text+0x11632): undefined reference to hts_log' <artificial>:(.text+0x11662): undefined reference to hts_log'
:(.text+0x11692): undefined reference to hts_log' <artificial>:(.text+0x116c2): undefined reference to hts_log'
:(.text+0x11772): undefined reference to hts_log' /tmp/octopus.6n0HcM.ltrans120.ltrans.o:<artificial>:(.text+0x11792): more undefined references to hts_log' follow
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibSamFacade(boost::filesystem::path, boost::filesystem::path)': <artificial>:(.text+0x141db): undefined reference to hts_open'
:(.text+0x14217): undefined reference to hts_close' <artificial>:(.text+0x1423a): undefined reference to hts_idx_destroy'
:(.text+0x1424a): undefined reference to sam_hdr_write' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function sam_itr_next':
:(.text+0x1727): undefined reference to hts_itr_next' <artificial>:(.text+0x1735): undefined reference to hts_itr_multi_next'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibIterator::HtslibIterator(octopus::io::HtslibSamFacade const&, octopus::GenomicRegion const&) [clone .cold]': <artificial>:(.text.unlikely+0x639): undefined reference to bam_destroy1'
:(.text.unlikely+0x647): undefined reference to hts_itr_destroy' /tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::HtslibBcfFacade::HtslibBcfFacade(boost::filesystem::path, octopus::HtslibBcfFacade::Mode) [clone .cold]':
:(.text.unlikely+0x98b): undefined reference to bcf_hdr_destroy' <artificial>:(.text.unlikely+0x999): undefined reference to hts_close'
/tmp/octopus.6n0HcM.ltrans120.ltrans.o: In function octopus::io::HtslibSamFacade::HtslibSamFacade(boost::filesystem::path) [clone .cold]': <artificial>:(.text.unlikely+0x1ece): undefined reference to hts_idx_destroy'
:(.text.unlikely+0x1edc): undefined reference to sam_hdr_destroy' <artificial>:(.text.unlikely+0x1eea): undefined reference to hts_close'
collect2: error: ld returned 1 exit status
make[2]: *** [src/octopus] Error 1
make[1]: *** [src/CMakeFiles/octopus.dir/all] Error 2
make: *** [all] Error 2