Re: Help to compile test cases

[Konstantinos Poulios]

It seems that you are not the first to experience this:

https://aur.archlinux.org/packages/getfem/

This is the same line where you get the error message, but on my system

/bin/bash ../libtool  --tag=CXX   --mode=link g++  -g -O2 -fmessage-length=0 -fvisibility-inlines-hidden -ftemplate-depth-100 -std=c++14 -fPIC -Wall -W -Wextra -Wshadow -Wno-unknown-pragmas -Wno-variadic-macros -Wno-unused-but-set-variable -Wpointer-arith -Wcast-qual -Wwrite-strings -Wconversion -Wredundant-decls -Wno-long-long   -o test_mesh test_mesh.o ../src/libgetfem.la -lm  -rdynamic -lsmumps_seq-5.3.5 -ldmumps_seq-5.3.5 -lcmumps_seq-5.3.5 -lzmumps_seq-5.3.5 -lqhull -lsuperlu -lsuperlu -ldl -llapack  -lblas

maybe it helps you to compare. In general try a clean compilation, with a minimum set of features enabled, and then enable one feature at the time. It will be easier for you to debug and for us to help.

Best regards

Kostas

On Fri, May 7, 2021 at 4:56 PM edgar <edgarlux@cryptolab.net> wrote:

Hi,

I think that GetFEM gets compiled correctly, but I cannot compile the
test cases. Can _anybody_ help me, please? Thanks!

make[2]: 'dynamic_array' is up to date.
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o dynamic_tas
dynamic_tas.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_int_set
test_int_set.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_tree_sorted
test_tree_sorted.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o poly poly.o
../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps -lzmumps -lqhull
-lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_small_vector
test_small_vector.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_kdtree
test_kdtree.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_rtree
test_rtree.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
/bin/sh ../libtool  --tag=CXX   --mode=link mpic++  -fPIC -fopenmp -O3
-march=amdfam10 -mtune=generic -O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 
-Wl,-O1,--sort-common,--as-needed,-z,relro,-z,now -o test_mesh
test_mesh.o ../src/libgetfem.la -lm  -lsmumps -ldmumps -lcmumps -lzmumps
-lqhull -lsuperlu -lsuperlu -llapack -lmpi_cxx  -lblas -lmetis
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/poly poly.o 
../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps -lzmumps
-lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/test_int_set
test_int_set.o  ../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o
.libs/test_small_vector test_small_vector.o  ../src/.libs/libgetfem.so
-lm -lsmumps -ldmumps -lcmumps -lzmumps -lqhull -lsuperlu -llapack
-lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/dynamic_tas
dynamic_tas.o  ../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/test_rtree
test_rtree.o  ../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/test_kdtree
test_kdtree.o  ../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o
.libs/test_tree_sorted test_tree_sorted.o  ../src/.libs/libgetfem.so -lm
-lsmumps -ldmumps -lcmumps -lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx
-lblas -lmetis -fopenmp
libtool: link: mpic++ -fPIC -fopenmp -O3 -march=amdfam10 -mtune=generic
-O2 -D_FORTIFY_SOURCE=2 -O3 -std=c++14 -Wl,-O1 -Wl,--sort-common
-Wl,--as-needed -Wl,-z -Wl,relro -Wl,-z -Wl,now -o .libs/test_mesh
test_mesh.o  ../src/.libs/libgetfem.so -lm -lsmumps -ldmumps -lcmumps
-lzmumps -lqhull -lsuperlu -llapack -lmpi_cxx -lblas -lmetis -fopenmp
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_sol_get_npiv_liell_ipos_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to `mpi_pack_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_get_nnz_internal_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_fac_descband_data_m_MOD_inode_waited_for'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mpi_cancel_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`blacs_gridinfo_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_ana_h_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_fac_descband_data_m_MOD_mumps_fdbd_retrieve_descband'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_fac_maprow_data_m_MOD_mumps_fmrd_is_maprow_stored'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_sol_get_npiv_liell_ipos_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_encode_tpn_iproc_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to `mpi_pack_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_ooc_is_async_avail_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_get_nnz_internal_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_sol_get_npiv_liell_ipos_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_set_version_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_fac_descband_data_m_MOD_inode_waited_for'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_ooc_common_MOD_ooc_inode_sequence'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to `mpi_pack_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mpi_cancel_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to `psgetrs_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_get_nnz_internal_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`blacs_gridinfo_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_sol_get_npiv_liell_ipos_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_ooc_get_file_name_c_'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`__mumps_fac_descband_data_m_MOD_inode_waited_for'
/usr/bin/ld: /usr/lib64/libsmumps.so: undefined reference to
`mumps_ana_h_'
/usr/bin/ld/usr/bin/ld: : /usr/lib64/libsmumps.so: undefined reference
to `/usr/lib64/libsmumps.so: undefined reference to
`mpi_type_commit_mpi_pack_'
'
---- 8< --- (continues)