Hi all,
I'm trying to build Rosetta (rosetta.source.release-296 and 314) in CentOS 7 in Virtual Machine (VM) with MPI 4.1.3 and gcc 8.3.1. This is the first time that I try to compile Rosetta in a VM.
The command line is as below:
./scons.py mode=release bin extras=mpi
After several minutes, I have the following error message:
mpiCC -o build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/core/pack/dunbrack/RotamerLibrary.os -c -std=c++0x -ffor-scope -isystem external/boost_submod/ -isystem external/ -isystem external/include/ -isystem external/dbio/ -isystem external/libxml2/include -isystem external/rdkit -pipe -Wall -Wextra -pedantic -Wno-long-long -Wno-strict-aliasing -march=core2 -mtune=generic -O3 -ffast-math -fno-finite-math-only -funroll-loops -finline-functions -finline-limit=20000 -s -Wno-unused-variable -Wno-unused-parameter -fPIC -DBOOST_ERROR_CODE_HEADER_ONLY -DBOOST_SYSTEM_NO_DEPRECATED -DBOOST_MATH_NO_LONG_DOUBLE_MATH_FUNCTIONS -DBOOST_DISABLE_THREADS -DPTR_STD -DNDEBUG -DUSEMPI -Isrc -Iexternal/include -Isrc/platform/linux/64/gcc/4.8 -Isrc/platform/linux/64/gcc -Isrc/platform/linux/64 -Isrc/platform/linux src/core/pack/dunbrack/RotamerLibrary.cc
{standard input}: Assembler messages:
{standard input}:371327: Warning: end of file not at end of a line; newline inserted
{standard input}:372565: Error: invalid operands (*UND* and .gcc_except_table sections) for `-'
{standard input}:372723: Error: invalid operands (.text._ZNK4core4pack8dunbrack41SemiRotamericSingleResidueDunbrackLibraryILm1ELm2EEeqERKNS0_8rotamers27SingleResidueRotamerLibraryE and *UND* sections) for `-'
g++: internal compiler error: Killed (program cc1plus)
Please submit a full bug report,
with preprocessed source if appropriate.
See <http://bugzilla.redhat.com/bugzilla> for instructions.
scons: *** [build/src/release/linux/3.10/64/x86/gcc/4.8/mpi/core/pack/rotamers/SingleNCAARotamerLibraryCreator.os] Error 4
scons: building terminated because of errors.
Any ideas how to troubleshoot this?
Thanks in advance,
Fan.
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