Boost issue while running make

[chaitanyamalaviya]

Hi, I was trying to install travatar, but have been facing the following issue. I installed boost through conda and the version is 1.61.0. Do you know what the issue might be? I'm already specifying LD_LIBRARY_PATH to the boost libraries.

Thanks a lot!

Making all in src
make[1]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src'
Making all in liblbfgs
make[2]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/liblbfgs'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/liblbfgs'
Making all in marisa
make[2]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/marisa'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/marisa'
Making all in tercpp
make[2]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/tercpp'
make[2]: Nothing to be done for `all'.
make[2]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/tercpp'
Making all in kenlm
make[2]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm'
Making all in util
make[3]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm/util'
make[3]: Nothing to be done for `all'.
make[3]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm/util'
Making all in lm
make[3]: Entering directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm/lm'
/bin/sh ../../../libtool  --tag=CXX   --mode=link g++ -g -O3 -Wall -DKENLM_MAX_ORDER=6 -W -Wall -Wno-sign-compare  -I./.. -pthread -I/usr/include -g -O2   -o query query_main.o libklm.la ../util/libklm_util.la -lz -L/usr/lib64 -lboost_program_options-mt -lboost_thread-mt -lboost_system -lpthread -lrt 
libtool: link: g++ -g -O3 -Wall -DKENLM_MAX_ORDER=6 -W -Wall -Wno-sign-compare -I./.. -pthread -I/usr/include -g -O2 -o .libs/query query_main.o  ./.libs/libklm.so ../util/.libs/libklm_util.so -lz -L/usr/lib64 -lboost_program_options-mt -lboost_thread-mt -lboost_system -lpthread -lrt -pthread -Wl,-rpath -Wl,/usr/local/lib
./.libs/libklm.so: undefined reference to `boost::thread::start_thread_noexcept()'
../util/.libs/libklm_util.so: undefined reference to `boost::thread::join_noexcept()'
./.libs/libklm.so: undefined reference to `boost::system::system_category()'
./.libs/libklm.so: undefined reference to `boost::system::generic_category()'
collect2: error: ld returned 1 exit status
make[3]: *** [query] Error 1
make[3]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm/lm'
make[2]: *** [all-recursive] Error 1
make[2]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src/kenlm'
make[1]: *** [all-recursive] Error 1
make[1]: Leaving directory `/projects/tir1/users/cmalaviy/travatar/src'
make: *** [all-recursive] Error 1

[neubig]

This is probably because you have two versions of boost on your system and it's finding one when compiling then one when linking. I'd suggest not install boost through conda, and just using the system boost.

[chaitanyamalaviya]

Your diagnosis seems right. However, the system boost (1.41) is much older than the minimum version required by travatar (1.49). Do you know how I could make travatar look for the conda boost both when compiling and linking?

[neubig]

You're on tir, right? Please use singularity. I've installed boost and confirmed the version is 1.58.

[chaitanyamalaviya]

Yes, that should work then. Thanks!