Comments (6)
I could solve the issue but now I have several errors from "undefined references to":
ompi_mpi_comm_world
MPI_Barrier
ompi_mpi_double
MPI_Gather
MPI_Finalize
MPI_Wtime
Among several others..... I'm a novice in the command line and have no experience whatsoever with C++ so I'm really confused. Thanks for your attention to the issue.
from comp-d_mpi.
from comp-d_mpi.
Hi Juan,
Sorry, I didn't see your second post until now. Those errors seem to indicate that MPI is not being found. My initial troubleshooting recommendations would hold up - perhaps try installing MPI through conda (or disabling conda entirely) and see if that makes a difference.
-Steve
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Thanks Steve. It seems deactivating conda fixed most of the previous issues but I still got this error after running make:
mpic++ -g -O2 -lboost_program_options -lpthread -o compDmpi compDmpi-dstat_main.o fourtax.o locusfile.o Stats.o DstatParent.o Dstat.o partD.o Dfoil.o popZParent.o popZDstat.o popZpartD.o popZDfoil.o -lboost_program_options -lpthread
/home/biologistico/miniconda2/bin/../lib/gcc/x86_64-conda-linux-gnu/7.5.0/../../../../x86_64-conda-linux-gnu/bin/ld: /home/biologistico/miniconda2/lib/libboost_program_options.so: undefined reference to `memcpy@GLIBC_2.14'
collect2: error: ld returned 1 exit status
make[1]: *** [Makefile:545: compDmpi] Error 1
make[1]: Leaving directory '/home/biologistico/Comp-D_MPI-master/src'
make: *** [Makefile:353: all-recursive] Error 1
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I was finally able to install Comp-D_MPI after using
sudo apt-get install libboost-dev libboost-program-options-dev libmpich-dev autotools-dev autoconf
and not
sudo apt-get install libboost-dev libboost-program-options-dev libmpich2-dev autotools-dev autoconf
I'll try running my first D-statistics tests tomorrow! Thanks!
from comp-d_mpi.
Glad you got it working. I will add a note to the installation instructions so that others hopefully don't go through the same issues.
-Steve
from comp-d_mpi.
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