Hello, users? Currently, I'm trying to compile XOOPIC (2D plasma simulation program, MPI parallel operation available) in conjunction with MPI.
I had no problem with XOOPIC compilation in single-machine operation mode; however, when MPI mode is turned enabled, it generated about four or more page error messages. Linux cluster that I'm using is supposed is under single-machine operation due to some technical problems. (It means that only one node is currently working.) The error shown below doesn't appear to originate from XOOPIC, but rather from MPI linkage. (I've made a simple mpi-test c program, compiled with mpicc and run with mpirun. It just worked fine.) * I have MPI version 1.2.7p1 * gcc, g++ version 3.4.6 (both) * OS: centOS * Both MPICH & MPICH2 are installed in the machine. (/usr/local/mpich, /usr/local/mpich2) 1. This is PATH & LD_LIBRARY_PATH --------------------------------------------- Echo $PATH /usr/kerberos/sbin:/usr/local/mpich/bin:/usr/local/mpich2/bin:/usr/local/pbs /sbin:/usr/local/pbs/bin:/usr/local/maui/sbin:/usr/local/maui/bin:/usr/local /bwatch:/usr/local/hpc/bin:/opt/intel/compiler/9.1/bin:/opt/absoft/bin:/usr/ local/ldap/bin:/usr/local/ldap/sbin:/usr/kerberos/bin:/usr/local/mpich/bin:/ usr/local/mpich2/bin:/usr/local/pbs/sbin:/usr/local/pbs/bin:/usr/local/maui/ sbin:/usr/local/maui/bin:/usr/local/bwatch:/usr/local/hpc/bin:/opt/intel/com piler/9.1/bin:/opt/absoft/bin:/usr/local/ldap/bin:/usr/local/ldap/sbin:/usr/ local/bin:/bin:/usr/bin:/usr/X11R6/bin:/usr/local/ganglia/bin:/home/jooilyoo n/bin:/usr/local/ganglia/bin:/usr/local/mpich:/usr/local/mpich2 Echo $LD_LIBRARY_PATH /opt/intel/compiler/9.1/lib:/opt/intel/mkl/8.1.1/lib/em64t::/usr/local/mpich /bin:/usr/local/mpich2/bin/:/usr/local/mpich:/usr/local/mpich2:/usr/local/mp ich/lib:/usr/local/mpich2/lib ------------------------------------------------ 2. Below is a message relevant to MPI during configuration. (It seems no problem occurs.) ------------------------------------------------ checking for mpicxx... /usr/local/mpich/bin/mpicxx checking for mpicc... /usr/local/mpich/bin/mpicc ------------------------------------------------ 3. Below is a message in config.log ------------------------------------------------ configure:7702: checking for mpicxx configure:7720: found /usr/local/mpich/bin/mpicxx configure:7732: result: /usr/local/mpich/bin/mpicxx configure:7833: checking for mpicc configure:7851: found /usr/local/mpich/bin/mpicc configure:7863: result: /usr/local/mpich/bin/mpicc ------------------------------------------------- 4. This is a error message when make is executed. -------------------------------------------------- g++ -Wall -Wno-unused -g -DDEBUG -DUNIX -DMPI_VERSION -DMPI_DEBUG -o xoopic main.o xgmain.o -L../otools -lotools -L../advisor -ladvisor -L../physics -lphysics -lotools -ladvisor -Wl,-rpath,. -L/usr/lib -ltk8.4 -L/usr/lib -ltcl8.4 -L/usr/local/xgrafix/lib -Wl,-rpath,/usr/local/xgrafix/lib -lXGC250 -L/usr/X11R6/lib64 -Wl,-rpath,/usr/X11R6/lib64 -lXpm -ldl -L/usr/lib -lz -Wl,-rpath,/usr/lib -lm main.o(.text+0x18d): In function `main': /home/jooilyoon/xoopic2/xg/main.cpp:72: undefined reference to `MPI_Init' main.o(.text+0x19c):/home/jooilyoon/xoopic2/xg/main.cpp:76: undefined reference to `MPI_Comm_group' main.o(.text+0x1b1):/home/jooilyoon/xoopic2/xg/main.cpp:77: undefined reference to `MPI_Comm_create' main.o(.text+0x1c1):/home/jooilyoon/xoopic2/xg/main.cpp:78: undefined reference to `MPI_Comm_rank' ../otools/libotools.a(diagn.o)(.text+0x85de): In function `Diagnostics::UpdatePreDiagnostics()': /home/jooilyoon/xoopic2/otools/diagn.cpp:867: undefined reference to `lam_mpi_sum' ../otools/libotools.a(diagn.o)(.text+0x85e3):/home/jooilyoon/xoopic2/otools/ diagn.cpp:867: undefined reference to `lam_mpi_float' ../otools/libotools.a(diagn.o)(.text+0x85ed):/home/jooilyoon/xoopic2/otools/ diagn.cpp:867: undefined reference to `MPI_Reduce' ../otools/libotools.a(diagn.o)(.gnu.linkonce.r._ZTVN3MPI2OpE+0x20): undefined reference to `MPI::Op::Init(void (*)(void const*, void*, int, MPI::Datatype const&), bool)' ../otools/libotools.a(diagn.o)(.gnu.linkonce.r._ZTVN3MPI2OpE+0x28): undefined reference to `MPI::Op::Free()' ../otools/libotools.a(diagn.o)(.gnu.linkonce.t._ZN4PMPI8Datatype8Set_nameEPK c+0x1d): In function `PMPI::Datatype::Set_name(char const*)': /usr/include/mpi2cxx/datatype_inln.h:260: undefined reference to `MPI_Type_set_name' ../otools/libotools.a(diagn.o)(.gnu.linkonce.t._ZN4PMPI8Datatype8Set_attrEiP Kv+0x23): In function `PMPI::Datatype::Set_attr(int, void const*)': /usr/include/mpi2cxx/datatype_inln.h:253: undefined reference to `MPI_Type_set_attr' ../otools/libotools.a(diagn.o)(.gnu.linkonce.t._ZNK4PMPI8Datatype8Get_nameEP cRi+0x25): In function `PMPI::Datatype::Get_name(char*, int&) const': /usr/include/mpi2cxx/datatype_inln.h:246: undefined reference to `MPI_Type_get_name' ../otools/libotools.a(diagn.o)(.gnu.linkonce.t._ZNK4PMPI8Datatype12Get_envel opeERiS1_S1_S1_+0x3e): In function `PMPI::Datatype::Get_envelope(int&, int&, int&, int&) const': ........... (about a few pages of similar errors follow) ............ ../otools/libotools.a(dump.o)(.text+0xd1a): In function `Quit': /home/jooilyoon/xoopic2/otools/dump.cpp:375: undefined reference to `MPI_Finalize' collect2: ld returned 1 exit status make[2]: *** [xoopic] Error 1 make[2]: Leaving directory `/home/jooilyoon/xoopic2/xg' make[1]: *** [all-recursive] Error 1 make[1]: Leaving directory `/home/jooilyoon/xoopic2' make: *** [all] Error 2 [root@node1 xoopic2]# -------------------------------------------------------- All messages shown during configure, make, make install + config.log files are compressed into mpi-output.tar, attached in this e-mail. Can anybody please advise me on this problem? Any suggestion would be sincerely appreciated. Thanks. Jung, Soon-Wook
ompi-output.tar
Description: Unix tar archive
