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SV detection from paired end reads mapping
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Compiling breakdancer: ` undefined reference to `std::__detail::_List_node_base::_M_hook` #14

Closed lindenb closed 8 years ago

lindenb commented 8 years ago

Hi, I tried to compile breakdancer, But I recevied the following C++ error: std::__detail::_List_node_base::_M_hook

here is my trace:

rm -rf breakdancer
git clone --recursive https://github.com/genome/breakdancer.git
Initialized empty Git repository in /commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/.git/
remote: Counting objects: 4480, done.
remote: Total 4480 (delta 0), reused 0 (delta 0), pack-reused 4480
Receiving objects: 100% (4480/4480), 10.49 MiB | 2.35 MiB/s, done.
Resolving deltas: 100% (2120/2120), done.
(cd breakdancer &&  mkdir build && cd build && cmake .. -DCMAKE_BUILD_TYPE=release -DCMAKE_INSTALL_PREFIX=/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv &&  make deps && make)
-- The C compiler identification is GNU 4.4.7
-- The CXX compiler identification is GNU 4.4.7
-- 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
-- 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
Score floating point type: double
-- Looking for include file pthread.h
-- Looking for include file pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Performing Test CXX11_FLAG0
-- Performing Test CXX11_FLAG0 - Failed
-- Performing Test CXX11_FLAG1
-- Performing Test CXX11_FLAG1 - Success
-- C++11 support enabled via -std=c++0x
-- Performing Test CXX11_STDLIB_FLAG0
-- Performing Test CXX11_STDLIB_FLAG0 - Success
-- Sufficient C++11 library support found with flag ' '
-- Found ZLIB: /usr/lib64/libz.so (found version "1.2.3") 
-- Configuring done
-- Generating done
-- Build files have been written to: /commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build
make[1]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[2]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target boost-libs
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[  6%] Creating directories for 'boost-libs'
[ 12%] Performing download step (verify and extract) for 'boost-libs'
-- verifying file...
     file='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/vendor/boost-1.54-breakdancer.tar.gz'
-- verifying file... warning: did not verify file - no URL_HASH specified?
-- extracting...
     src='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/vendor/boost-1.54-breakdancer.tar.gz'
     dst='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/boost/boost-src'
-- extracting... [tar xfz]
-- extracting... [analysis]
-- extracting... [rename]
-- extracting... [clean up]
-- extracting... done
[ 18%] No patch step for 'boost-libs'
[ 25%] No update step for 'boost-libs'
[ 31%] Performing configure step for 'boost-libs'
Building Boost.Build engine with toolset gcc... tools/build/v2/engine/bin.linuxx86_64/b2
Detecting Python version... 2.6
Detecting Python root... /usr
Unicode/ICU support for Boost.Regex?... not found.
Generating Boost.Build configuration in project-config.jam...

Bootstrapping is done. To build, run:

    ./b2

To adjust configuration, edit 'project-config.jam'.
Further information:

   - Command line help:
     ./b2 --help

   - Getting started guide: 
     http://www.boost.org/more/getting_started/unix-variants.html

   - Boost.Build documentation:
     http://www.boost.org/boost-build2/doc/html/index.html

[ 37%] Performing build step for 'boost-libs'
[ 43%] No install step for 'boost-libs'
[ 50%] Completed 'boost-libs'
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 50%] Built target boost-libs
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target samtools-lib
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 56%] Creating directories for 'samtools-lib'
[ 62%] Performing download step (verify and extract) for 'samtools-lib'
-- verifying file...
     file='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/vendor/samtools-0.1.19.tar.gz'
-- verifying file... warning: did not verify file - no URL_HASH specified?
-- extracting...
     src='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/vendor/samtools-0.1.19.tar.gz'
     dst='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/samtools'
-- extracting... [tar xfz]
-- extracting... [analysis]
-- extracting... [rename]
-- extracting... [clean up]
-- extracting... done
[ 68%] No patch step for 'samtools-lib'
[ 75%] No update step for 'samtools-lib'
[ 81%] Performing configure step for 'samtools-lib'
Building samtools, build log at /commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/samtools/build.log
[ 87%] Performing build step for 'samtools-lib'
[ 93%] No install step for 'samtools-lib'
[100%] Completed 'samtools-lib'
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[100%] Built target samtools-lib
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target deps
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[100%] Built target deps
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[2]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[1]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[1]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[2]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 14%] Built target boost-libs
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 28%] Built target samtools-lib
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 28%] Built target deps
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target gtest160
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 29%] Creating directories for 'gtest160'
[ 31%] Performing download step (verify and extract) for 'gtest160'
-- verifying file...
     file='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build-common/vendor/gtest-1.6.0.tar.gz'
-- verifying file... warning: did not verify file - no URL_HASH specified?
-- extracting...
     src='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build-common/vendor/gtest-1.6.0.tar.gz'
     dst='/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/src/gtest160'
-- extracting... [tar xfz]
-- extracting... [analysis]
-- extracting... [rename]
-- extracting... [clean up]
-- extracting... done
[ 33%] No patch step for 'gtest160'
[ 35%] No update step for 'gtest160'
[ 36%] Performing configure step for 'gtest160'
-- The CXX compiler identification is GNU 4.8.2
-- The C compiler identification is GNU 4.8.2
-- Check for working CXX compiler: /cm/shared/apps/gcc/4.8.2/bin/c++
-- Check for working CXX compiler: /cm/shared/apps/gcc/4.8.2/bin/c++ -- works
-- Detecting CXX compiler ABI info
-- Detecting CXX compiler ABI info - done
-- Check for working C compiler: /cm/shared/apps/gcc/4.8.2/bin/gcc
-- Check for working C compiler: /cm/shared/apps/gcc/4.8.2/bin/gcc -- works
-- Detecting C compiler ABI info
-- Detecting C compiler ABI info - done
-- Found PythonInterp: /usr/bin/python (found version "2.6.6") 
-- Looking for include file pthread.h
-- Looking for include file pthread.h - found
-- Looking for pthread_create
-- Looking for pthread_create - not found
-- Looking for pthread_create in pthreads
-- Looking for pthread_create in pthreads - not found
-- Looking for pthread_create in pthread
-- Looking for pthread_create in pthread - found
-- Found Threads: TRUE  
-- Configuring done
-- Generating done
-- Build files have been written to: /commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build
[ 38%] Performing build step for 'gtest160'
make[4]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
make[5]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
make[6]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
Scanning dependencies of target gtest
make[6]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
make[6]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
[ 50%] Building CXX object CMakeFiles/gtest.dir/src/gtest-all.cc.o
Linking CXX static library libgtest.a
make[6]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
[ 50%] Built target gtest
make[6]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
Scanning dependencies of target gtest_main
make[6]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
make[6]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
[100%] Building CXX object CMakeFiles/gtest_main.dir/src/gtest_main.cc.o
Linking CXX static library libgtest_main.a
make[6]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
[100%] Built target gtest_main
make[5]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
make[4]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build/vendor/gtest160-build'
[ 40%] No install step for 'gtest160'
[ 42%] Completed 'gtest160'
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 42%] Built target gtest160
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target breakdancer
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 43%] Building CXX object build/src/lib/breakdancer/CMakeFiles/breakdancer.dir/BedWriter.cpp.o
[ 45%] Building CXX object build/src/lib/breakdancer/CMakeFiles/breakdancer.dir/BreakDancer.cpp.o
[ 47%] Building CXX object build/src/lib/breakdancer/CMakeFiles/breakdancer.dir/ReadRegionData.cpp.o
[ 49%] Building CXX object build/src/lib/breakdancer/CMakeFiles/breakdancer.dir/SvBuilder.cpp.o
Linking CXX static library libbreakdancer.a
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 49%] Built target breakdancer
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target common
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 50%] Building CXX object build/src/lib/common/CMakeFiles/common.dir/Options.cpp.o
[ 52%] Building CXX object build/src/lib/common/CMakeFiles/common.dir/ReadFlags.cpp.o
Linking CXX static library libcommon.a
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 52%] Built target common
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target io
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 54%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/Alignment.cpp.o
[ 56%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamConfig.cpp.o
[ 57%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamConfigEntry.cpp.o
[ 59%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamIo.cpp.o
[ 61%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamMerger.cpp.o
[ 63%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamSummary.cpp.o
[ 64%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/BamWriter.cpp.o
[ 66%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/ConfigLoader.cpp.o
[ 68%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/FastqWriter.cpp.o
[ 70%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/IlluminaPEReadClassifier.cpp.o
[ 71%] Building CXX object build/src/lib/io/CMakeFiles/io.dir/LibraryFlagDistribution.cpp.o
Linking CXX static library libio.a
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 71%] Built target io
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
Scanning dependencies of target breakdancer-max
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[3]: Entering directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
[ 73%] Building CXX object build/src/exe/breakdancer-max/CMakeFiles/breakdancer-max.dir/BreakDancerMax.cpp.o
Linking CXX executable ../../../../bin/breakdancer-max
../../../../vendor/boost/boost/lib/libboost_serialization.a(shared_ptr_helper.o): In function `boost::archive::detail::shared_ptr_helper::append(boost_132::shared_ptr<void const> const&)':
shared_ptr_helper.cpp:(.text+0x6d): undefined reference to `std::__detail::_List_node_base::_M_hook(std::__detail::_List_node_base*)'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::exception_detail::error_info_injector<std::invalid_argument>::~error_info_injector()':
instances.cpp:(.text._ZN5boost16exception_detail19error_info_injectorISt16invalid_argumentED2Ev[_ZN5boost16exception_detail19error_info_injectorISt16invalid_argumentED5Ev]+0x33): undefined reference to `std::invalid_argument::~invalid_argument()'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::~clone_impl()':
instances.cpp:(.text._ZN5boost16exception_detail10clone_implINS0_19error_info_injectorISt16invalid_argumentEEED1Ev[boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::~clone_impl()]+0x3a): undefined reference to `std::invalid_argument::~invalid_argument()'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::exception_detail::error_info_injector<std::invalid_argument>::~error_info_injector()':
instances.cpp:(.text._ZN5boost16exception_detail19error_info_injectorISt16invalid_argumentED0Ev[boost::exception_detail::error_info_injector<std::invalid_argument>::~error_info_injector()]+0x32): undefined reference to `std::invalid_argument::~invalid_argument()'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::~clone_impl()':
instances.cpp:(.text._ZN5boost16exception_detail10clone_implINS0_19error_info_injectorISt16invalid_argumentEEED0Ev[boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::~clone_impl()]+0x3a): undefined reference to `std::invalid_argument::~invalid_argument()'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::rethrow() const':
instances.cpp:(.text._ZNK5boost16exception_detail10clone_implINS0_19error_info_injectorISt16invalid_argumentEEE7rethrowEv[boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::rethrow() const]+0xbd): undefined reference to `std::invalid_argument::~invalid_argument()'
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o):instances.cpp:(.text._ZNK5boost16exception_detail10clone_implINS0_19error_info_injectorISt16invalid_argumentEEE5cloneEv[boost::exception_detail::clone_impl<boost::exception_detail::error_info_injector<std::invalid_argument> >::clone() const]+0x179): more undefined references to `std::invalid_argument::~invalid_argument()' follow
../../../../vendor/boost/boost/lib/libboost_regex.a(instances.o): In function `boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, boost::re_detail::cpp_regex_traits_implementation<char> >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned long)':
instances.cpp:(.text._ZN5boost12object_cacheINS_9re_detail21cpp_regex_traits_baseIcEENS1_31cpp_regex_traits_implementationIcEEE6do_getERKS3_m[boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, boost::re_detail::cpp_regex_traits_implementation<char> >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned long)]+0xda): undefined reference to `std::__detail::_List_node_base::_M_transfer(std::__detail::_List_node_base*, std::__detail::_List_node_base*)'
instances.cpp:(.text._ZN5boost12object_cacheINS_9re_detail21cpp_regex_traits_baseIcEENS1_31cpp_regex_traits_implementationIcEEE6do_getERKS3_m[boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, boost::re_detail::cpp_regex_traits_implementation<char> >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned long)]+0x105): undefined reference to `std::__detail::_List_node_base::_M_transfer(std::__detail::_List_node_base*, std::__detail::_List_node_base*)'
instances.cpp:(.text._ZN5boost12object_cacheINS_9re_detail21cpp_regex_traits_baseIcEENS1_31cpp_regex_traits_implementationIcEEE6do_getERKS3_m[boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, boost::re_detail::cpp_regex_traits_implementation<char> >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned long)]+0x332): undefined reference to `std::__detail::_List_node_base::_M_hook(std::__detail::_List_node_base*)'
instances.cpp:(.text._ZN5boost12object_cacheINS_9re_detail21cpp_regex_traits_baseIcEENS1_31cpp_regex_traits_implementationIcEEE6do_getERKS3_m[boost::object_cache<boost::re_detail::cpp_regex_traits_base<char>, boost::re_detail::cpp_regex_traits_implementation<char> >::do_get(boost::re_detail::cpp_regex_traits_base<char> const&, unsigned long)]+0x682): undefined reference to `std::__detail::_List_node_base::_M_unhook()'
collect2: ld returned 1 exit status
make[3]: *** [bin/breakdancer-max] Error 1
make[3]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[2]: *** [build/src/exe/breakdancer-max/CMakeFiles/breakdancer-max.dir/all] Error 2
make[2]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make[1]: *** [all] Error 2
make[1]: Leaving directory `/commun/data/users/lindenb/notebook/2016/20160321.wgs_snv/breakdancer/build'
make: *** [all] Error 2

what have I done wrong, please ?

chrisamiller commented 8 years ago

Hi Pierre - the only guy left here that has experience with Breakdancer is out on vacation this week, so you'll have to wait until he's back to get any kind of response. As a general note, support for Breakdancer is largely being phased out, because, frankly, there exists a newer class of algorithms that are just better. (i.e. Lumpy, MantaSV, etc). You might want to look into one of those in the meantime.

lindenb commented 8 years ago

Hi Chris, Thank you for the answer. I'm testing some algorithms and Breakdancer was on my list. Ok, I'll have a look at the other ones :-)