[mpich-discuss] undefined symbol: MPIR_Thread
Anthony Chan
chan at mcs.anl.gov
Thu Feb 3 09:58:51 CST 2011
Given you didn't remove ubuntu mpich, you should check
if /usr/local/include has any mpi.h, mpif.h or mpi.mod files,
if so remove them as well... If you do have these files, chances
are some of your object files are using these headers, so you need
to recompile everything again...
----- Original Message -----
> In your ccsm build log, you have this command and output:
>
> /usr/local/mpich2-1.3.1/bin/mpif90 -o
> /usr/workdir/cesm1_0_2/scripts/test1/run/ccsm.exe ccsm_driver.o
> map_atmatm_mct.o map_atmice_mct.o map_atmlnd_mct.o map_atmocn_mct.o
> map_glcglc_mct.o map_iceice_mct.o map_iceocn_mct.o map_lndlnd_mct.o
> map_ocnocn_mct.o map_rofocn_mct.o map_rofrof_mct.o map_snoglc_mct.o
> map_snosno_mct.o mrg_x2a_mct.o mrg_x2g_mct.o mrg_x2i_mct.o
> mrg_x2l_mct.o mrg_x2o_mct.o mrg_x2s_mct.o seq_avdata_mod.o
> seq_diag_mct.o seq_domain_mct.o seq_flux_mct.o seq_frac_mct.o
> seq_hist_mod.o seq_rearr_mod.o seq_rest_mod.o
> -L/usr/workdir/cesm1_0_2/scripts/test1/lib -latm -llnd -lice -locn
> -lglc -L/usr/workdir/cesm1_0_2/scripts/test1/lib -lcsm_share -lmct
> -lmpeu -lpio -L/usr/local/netcdf-4.1.1/lib -lnetcdf -lnetcdff
> -L/usr/local/hdf5/lib -lhdf5_hl -lhdf5 -L/usr/local/zlib/lib -lz -lm
> -lnetcdf -L/usr/local/lib -lcurl
> /usr/bin/ld: Warning: alignment 16 of symbol `mpifcmb4_' in
> /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in
> ccsm_driver.o
> /usr/bin/ld: Warning: alignment 16 of symbol `mpifcmb6_' in
> /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in
> ccsm_driver.o
> /usr/bin/ld: Warning: alignment 16 of symbol `mpifcmb8_' in
> /usr/local/lib/libmpich.a(setbot.o) is smaller than 32 in
> ccsm_driver.o
>
> Notice that the warning is about /usr/local/lib/libmpich.a which is
> mpich2 from ubuntu repository (I think
> mpich2-1.3.1's libmpich.a is in
> /usr/local/mpich2-1.3.1/lib/libmpich.a), right. Since you need
> libcurl.a(.so)
> from /usr/local/lib, you HAVE TO remove /usr/local/lib/libmpich.a,
> otherwise mpif90 will use libmpich.a from
> your /usr/local/lib first..
>
> A.Chan
>
> ----- Original Message -----
> > yes, ccsm.exe is created again, as a new folder is created each time
> > I
> > run the building process (meaning that the old one is removed).
> > So once the compilation starts, all is stored in folder /test1/....
> >
> > In attach the log file for creating the ccsm executable, as mct is
> > not
> > the module that creates the ccsm.exe file.
> >
> > On 02/03/2011 04:34 PM, Anthony Chan wrote:
> > > Your MCT build log does not contain the link command that creates
> > > ccsm.exe,
> > > so I am not sure if ccsm.exe has actually been recreated with the
> > > mpich2-1.3.1,
> > > i.e. you could be still use the old ccsm.exe that was linked with
> > > ubuntu mpich.
> > >
> > > So you need to remove all .o, .a (or .so) and ccsm.exe (or all
> > > .exe)
> > > files before
> > > compiling again to make sure everything is compiled and linked
> > > correctly with
> > > mpich2-1.3.1...
> > >
> > > A.Chan
> > >
> > > ----- Original Message -----
> > >> Ok!
> > >>
> > >> I realised that in first instance I installed mpich via the
> > >> ubuntu
> > >> repository, and afterwards i built it myself.
> > >> That was the reason why I had another MPI installation present.
> > >>
> > >> So I un-installed the first version, and built the other one
> > >> again,
> > >> to
> > >> be sure.
> > >> I have set the references as you said:
> > >>
> > >> FC := /usr/local/mpich2-1.3.1/bin/mpif90
> > >> CC := /usr/local/mpich2-1.3.1/bin/mpicc
> > >> F90 := /usr/local/mpich2-1.3.1/bin/mpif90
> > >> MPICC := /usr/local/mpich2-1.3.1/bin/mpicc
> > >> MPIF90 := /usr/local/mpich2-1.3.1/bin/mpif90
> > >>
> > >> and compiled the model again. This went ok, an executable was
> > >> created
> > >> (see attach for example of one of the modules)
> > >> Running the executable unfortunately gave me the same error:
> > >> ./ccsm.exe: symbol lookup error: ./ccsm.exe: undefined symbol:
> > >> MPIR_Thread
> > >>
> > >> So back to square one?
> > >>
> > >> Any new ideas?
> > >> Matthias
> > >>
> > >>
> > >> On 02/02/2011 07:08 PM, Anthony Chan wrote:
> > >>> You indicated mpich2-1.3.1 was installed in
> > >>> /usr/local/mpich2-1.3.1
> > >>> so /usr/local/bin/mpif90 refers to mpif90 from other MPI
> > >>> implementation.
> > >>> So you MUST specify fullpath to mpif90 in all your build scripts
> > >>> and/or
> > >>> makefiles. I also notice your bldlog uses compiler variables
> > >>> besides
> > >>> FC and CC,
> > >>> i.e. MPICC, MPIF90, F90..., and some of these fortran
> > >>>
> > >>> CC = $(MPICH_PATH)/bin/mpicc
> > >>> MPICC = $(MPICH_PATH)/bin/mpicc
> > >>> FC = $(MPICH_PATH)/bin/mpif90
> > >>> F90 = $(MPICH_PATH)/bin/mpif90
> > >>> MPIF90 = $(MPICH_PATH)/bin/mpif90
> > >>>
> > >>> and leave LIB_MPI and INC_MPI blank (that would help you locate
> > >>> which script
> > >>> and/or makefile that set FC to "gfortran" or "mpif90").
> > >>>
> > >>> The other option is to simply prefix your PATH with
> > >>> /usr/local/mpich2-1.3.1 to
> > >>> avoid /usr/local/bin's MPI compiler wrappers being used in CCSM
> > >>> build system,
> > >>> but then you have to check your environment every time running
> > >>> CCSM
> > >>> build system,
> > >>> and your build output won't show correct MPI implementation is
> > >>> being
> > >>> used or not.
> > >>> So I think you should follow the 1st approach that was
> > >>> suggested.
> > >>>
> > >>> A.Chan
> > >>>
> > >>> ----- Original Message -----
> > >>>> The files that I send were indeed with the LIB and INC
> > >>>> definitions
> > >>>> included.
> > >>>> But I did the test as well without these indications (and
> > >>>> setting
> > >>>> FC
> > >>>> and
> > >>>> CC to MPICH2/etc/etc/...), and the results were the same?
> > >>>> see example built log in attach.
> > >>>>
> > >>>> The "which mpif90" statement gives me:
> > >>>> /usr/local/bin/mpif90
> > >>>>
> > >>>> Matthias
> > >>>>
> > >>>> On 02/02/2011 04:48 PM, Anthony Chan wrote:
> > >>>>> All your bldlog files indicate that you set FC to mpif90 and
> > >>>>> NOT $(MPICH_PATH)/bin/mpif90 as I suggested earlier. You
> > >>>>> should
> > >>>>> set both LIB_MPI and INC_MPI to empty strings. Do you have
> > >>>>> other
> > >>>>> MPI implementations (older MPICH2 or other MPI
> > >>>>> implementations)
> > >>>>> installed on your system besides MPICH2-1.3.1 ? Do a "which
> > >>>>> mpif90"
> > >>>>> to find out.
> > >>>>>
> > >>>>> A.Chan
> > >>>>>
> > >>>>> ----- Original Message -----
> > >>>>>> Dear Anthony!
> > >>>>>>
> > >>>>>> I have now done what you suggested below:
> > >>>>>> Set FC and CC to mpif90 and mpicc and removing the inc_ and
> > >>>>>> lib_
> > >>>>>> references.
> > >>>>>> Again, I could built the executable, but running the latter
> > >>>>>> results
> > >>>>>> in
> > >>>>>> ./ccsm.exe: undefined symbol: MPIR_Thread
> > >>>>>>
> > >>>>>> Therefore, I set everything back to before and added this to
> > >>>>>> the
> > >>>>>> LIB_MPI
> > >>>>>> LIB_MPI := $(MPICH_PATH)/lib -lmpichf90 -lmpichf90 -lmpich
> > >>>>>> -lopa
> > >>>>>> -lmpl -lrt -lpthread
> > >>>>>>
> > >>>>>> As the last arguments were shown by mpif90 -show. But again,
> > >>>>>> same
> > >>>>>> error.
> > >>>>>>
> > >>>>>> For every module of the model, a log file is saved. I
> > >>>>>> attached
> > >>>>>> the
> > >>>>>> 3
> > >>>>>> most important ones:
> > >>>>>> - pio: parallel IO
> > >>>>>> - lnd: the land module that I would like to test
> > >>>>>> - ccsm: the log for building the executable
> > >>>>>>
> > >>>>>> As far as I can see, there could be something in pio, but I'm
> > >>>>>> not
> > >>>>>> sure,
> > >>>>>> and it doesn't seem to be enough to stop the compilation
> > >>>>>> process.
> > >>>>>>
> > >>>>>> Wouldn't there be any other way to deal with this thread
> > >>>>>> problem?
> > >>>>>> Kind regards,
> > >>>>>>
> > >>>>>> Matthias
> > >>>>>>
> > >>>>>>
> > >>>>>>
> > >>>>>> On 02/02/2011 01:12 AM, Anthony Chan wrote:
> > >>>>>>> I took a quick look at the scripts that you sent but they
> > >>>>>>> ain't
> > >>>>>>> very
> > >>>>>>> helpful
> > >>>>>>> as these files source some other files which ain't included
> > >>>>>>> in
> > >>>>>>> your
> > >>>>>>> attachment.
> > >>>>>>> In any case, my knowledge on CCSM is limited. Since the
> > >>>>>>> build
> > >>>>>>> problem is CCSM
> > >>>>>>> specific, you may want to contact CCSM developers to see
> > >>>>>>> what
> > >>>>>>> it
> > >>>>>>> should be done.
> > >>>>>>>
> > >>>>>>> Given your final executable (or one of the executables) has
> > >>>>>>> unresolved symbol
> > >>>>>>> MPIR_Thread, so it seems it didn't link in MPICH2 libraries
> > >>>>>>> correctly.
> > >>>>>>> I would first set FC=to $(MPICH_PATH)/bin/mpif90 and
> > >>>>>>> CC=$(MPICH_PATH)/bin/mpicc
> > >>>>>>> and leave LIB_MPI and INC_MPI empty since mpif90 and mpicc
> > >>>>>>> should
> > >>>>>>> take care of
> > >>>>>>> LIB_MPI and INC_MPI. You may want to save the compile and
> > >>>>>>> linking
> > >>>>>>> output of
> > >>>>>>> whole build process to see what goes wrong.
> > >>>>>>>
> > >>>>>>> A.Chan
> > >>>>>>>
> > >>>>>>>
> > >>>>>>>
> > >>>>>>> ----- Original Message -----
> > >>>>>>>> mmm, I am not sure if I can answer this question.
> > >>>>>>>> It is a global climate model, with a lot of packages, and
> > >>>>>>>> in
> > >>>>>>>> order
> > >>>>>>>> to
> > >>>>>>>> compile it I follow the installation guide of the model.
> > >>>>>>>> So I am not completely sure what I should provide you with?
> > >>>>>>>>
> > >>>>>>>> There is a seperate Macros files in which I have to adapt
> > >>>>>>>> libs
> > >>>>>>>> and
> > >>>>>>>> flags
> > >>>>>>>> for my system. The contents are as follows:
> > >>>>>>>> # Note that CPPDEFS is set in Macros.cppdefs
> > >>>>>>>> CPPDEFS += -DLINUX -DSEQ_$(FRAMEWORK) -DFORTRANUNDERSCORE
> > >>>>>>>> -DNO_R16
> > >>>>>>>> -DNO_SHR_VMATH
> > >>>>>>>>
> > >>>>>>>> ifeq ($(compile_threaded), true)
> > >>>>>>>> CPPDEFS += -DTHREADED_OMP
> > >>>>>>>> endif
> > >>>>>>>>
> > >>>>>>>> FC := mpif90
> > >>>>>>>> CC := mpicc
> > >>>>>>>>
> > >>>>>>>> HDF5_PATH := /usr/local/hdf5
> > >>>>>>>> HDF5_LIB := $(HDF5_PATH)/lib -lhdf5 -lhdf5_hl
> > >>>>>>>> NETCDF_PATH := /usr/local/netcdf-4.1.1
> > >>>>>>>> INC_NETCDF := $(NETCDF_PATH)/include
> > >>>>>>>> LIB_NETCDF := $(NETCDF_PATH)/lib -lnetcdf
> > >>>>>>>> -L/usr/local/hdf5/lib
> > >>>>>>>> -lhdf5_hl -lhdf5 -L/usr/local/zlib/lib -lz -lm
> > >>>>>>>> MOD_NETCDF := $(NETCDF_PATH)/include
> > >>>>>>>> MPICH_PATH := /usr/local/mpich2-1.3.1
> > >>>>>>>> INC_MPI := $(MPICH_PATH)/include
> > >>>>>>>> LIB_MPI := $(MPICH_PATH)/lib
> > >>>>>>>> MPI_LIB_NAME := mpich
> > >>>>>>>> PNETCDF_PATH :=
> > >>>>>>>> INC_PNETCDF :=
> > >>>>>>>> LIB_PNETCDF :=
> > >>>>>>>> LAPACK_LIBDIR :=
> > >>>>>>>> #=====================================================
> > >>>>>>>>
> > >>>>>>>> CFLAGS := $(CPPDEFS)
> > >>>>>>>> FIXEDFLAGS := -132
> > >>>>>>>> FREEFLAGS := -FR
> > >>>>>>>> ##FFLAGS := $(CPPDEFS) -g -fp-model precise -convert
> > >>>>>>>> big_endian
> > >>>>>>>> -assume byterecl -ftz -traceback
> > >>>>>>>> FFLAGS := $(CPPDEFS)-g -O2 -I/usr/local/include
> > >>>>>>>> FFLAGS_NOOPT := $(FFLAGS) -O0
> > >>>>>>>> FFLAGS_OPT := -O2
> > >>>>>>>> LDFLAGS :=
> > >>>>>>>> AR := ar
> > >>>>>>>> MOD_SUFFIX := mod
> > >>>>>>>> CONFIG_SHELL :=
> > >>>>>>>>
> > >>>>>>>> So maybe something is wrong here???
> > >>>>>>>> In attach I also sent you the configure file, and the build
> > >>>>>>>> file
> > >>>>>>>> to
> > >>>>>>>> compile the model.
> > >>>>>>>> That works all fine. Only when running the obtained
> > >>>>>>>> executable,
> > >>>>>>>> I
> > >>>>>>>> get
> > >>>>>>>> the error MPIR_Thread...
> > >>>>>>>> to run the .exe, I use the following:
> > >>>>>>>> mpirun ./ccsm.exe>&! ccsm.log.$LID
> > >>>>>>>>
> > >>>>>>>> as is mentioned in the test2.Latitude_E6400.run file in
> > >>>>>>>> attach.
> > >>>>>>>>
> > >>>>>>>> I do not know if you can do something with this, if not,
> > >>>>>>>> please
> > >>>>>>>> let
> > >>>>>>>> me
> > >>>>>>>> know....
> > >>>>>>>>
> > >>>>>>>> Matthias
> > >>>>>>>>
> > >>>>>>>>
> > >>>>>>>> On 02/01/2011 09:17 PM, Anthony Chan wrote:
> > >>>>>>>>> ----- Original Message -----
> > >>>>>>>>>
> > >>>>>>>>>> I can also perform the test as in the installation guide:
> > >>>>>>>>>> mpiexec -n 5 ./examples/cpi
> > >>>>>>>>>>
> > >>>>>>>>>> Process 1 of 5 is on MaffieLE6400
> > >>>>>>>>>> Process 3 of 5 is on MaffieLE6400
> > >>>>>>>>>> Process 0 of 5 is on MaffieLE6400
> > >>>>>>>>>> Process 2 of 5 is on MaffieLE6400
> > >>>>>>>>>> Process 4 of 5 is on MaffieLE6400
> > >>>>>>>>>> pi is approximately 3.1415926544231230, Error is
> > >>>>>>>>>> 0.0000000008333298
> > >>>>>>>>>> wall clock time = 0.000435
> > >>>>>>>>>>
> > >>>>>>>>>> as far as I can see all works fine?
> > >>>>>>>>> Yes.
> > >>>>>>>>>
> > >>>>>>>>>> The reason I configured with the
> > >>>>>>>>>> --with-thread-package=none
> > >>>>>>>>>> the
> > >>>>>>>>>> second
> > >>>>>>>>>> time was to deal with the MPIR_Thread error...
> > >>>>>>>>>> So I wonder how I can deal with this error?
> > >>>>>>>>> Let's just focus on using the mpich2 install that was
> > >>>>>>>>> configured
> > >>>>>>>>> without
> > >>>>>>>>> --with-thread-package. How did you compile your
> > >>>>>>>>> application
> > >>>>>>>>> ?
> > >>>>>>>>>
> > >>>>>>>>>> Thanks for your help!
> > >>>>>>>>>>
> > >>>>>>>>>> Matthias
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>> On 02/01/2011 08:24 PM, Anthony Chan wrote:
> > >>>>>>>>>>> ----- Original Message -----
> > >>>>>>>>>>>> Dear Anthony,
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> My apologies for posting to the wrong email list. I
> > >>>>>>>>>>>> will
> > >>>>>>>>>>>> register
> > >>>>>>>>>>>> to
> > >>>>>>>>>>>> the
> > >>>>>>>>>>>> other one so that in the future I can put my questions
> > >>>>>>>>>>>> there.
> > >>>>>>>>>>>> For now i'll post this directly to you, hope that is
> > >>>>>>>>>>>> fine??
> > >>>>>>>>>>> Yes. I cc'ed my reply to mpich-discuss as someone else
> > >>>>>>>>>>> may
> > >>>>>>>>>>> have
> > >>>>>>>>>>> things to add.
> > >>>>>>>>>>>
> > >>>>>>>>>>>> I am not sure if I understand what you mean with:
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> Did you use mpif90/mpif77 to link your code or just use
> > >>>>>>>>>>>> above
> > >>>>>>>>>>>> link
> > >>>>>>>>>>>> command which seems incomplete ?
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> I used the following line to check how mpich2 was
> > >>>>>>>>>>>> built,
> > >>>>>>>>>>>> as
> > >>>>>>>>>>>> I
> > >>>>>>>>>>>> first
> > >>>>>>>>>>>> got
> > >>>>>>>>>>>> an error with f90 vs f95.
> > >>>>>>>>>>>> So with
> > >>>>>>>>>>>> /usr/local/mpich2-1.3.1/bin/mpif90 -show
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> I get finally got:
> > >>>>>>>>>>>> gfortran -O2 -I/usr/local/mpich2-1.3.1/include
> > >>>>>>>>>>>> -I/usr/local/mpich2-1.3.1/include
> > >>>>>>>>>>>> -L/usr/local/mpich2-1.3.1/lib
> > >>>>>>>>>>>> -lmpichf90 -lmpichf90 -lmpich -lopa -lmpl -lrt
> > >>>>>>>>>>>> -lpthread
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> Do you mean that there is something missing here? And
> > >>>>>>>>>>>> should
> > >>>>>>>>>>>> I
> > >>>>>>>>>>>> add
> > >>>>>>>>>>>> it
> > >>>>>>>>>>>> than in my definition of INC_MPI and LIB_MPI?
> > >>>>>>>>>>> Let's focus if your mpich2 installation is correct
> > >>>>>>>>>>> first.
> > >>>>>>>>>>>> One other question. I was thinking that it could be
> > >>>>>>>>>>>> useful
> > >>>>>>>>>>>> to
> > >>>>>>>>>>>> built
> > >>>>>>>>>>>> mpich2 without threading, so I used:
> > >>>>>>>>>>>> ./configure -prefix=/usr/local/mpich2-1.3.1
> > >>>>>>>>>>>> --with-thread-package=none
> > >>>>>>>>>>> Try "./configure --prefix=/usr/local/mpich2-1.3.1",
> > >>>>>>>>>>> without
> > >>>>>>>>>>> --with-thread-package.
> > >>>>>>>>>>>
> > >>>>>>>>>>> A.Chan
> > >>>>>>>>>>>
> > >>>>>>>>>>>> But then I get a whole list of errors, e.g.:
> > >>>>>>>>>>>> /home/matthias/Downloads/mpich2-1.3.1/lib/libmpich.a(info_getn.o):
> > >>>>>>>>>>>> In
> > >>>>>>>>>>>> function
> > >>>>>>>>>>>> `MPIU_Thread_CS_exit_lockname_recursive_impl_':
> > >>>>>>>>>>>> info_getn.c:(.text+0x124): undefined reference to
> > >>>>>>>>>>>> `MPIU_Thread_mutex_unlock'
> > >>>>>>>>>>>> /home/matthias/Downloads/mpich2-1.3.1/lib/libmpich.a(info_getnth.o):
> > >>>>>>>>>>>> In
> > >>>>>>>>>>>> function
> > >>>>>>>>>>>> `MPIU_Thread_CS_enter_lockname_recursive_impl_':
> > >>>>>>>>>>>> info_getnth.c:(.text+0x32): undefined reference to
> > >>>>>>>>>>>> `MPIU_Thread_mutex_lock'
> > >>>>>>>>>>>> /home/matthias/Downloads/mpich2-1.3.1/lib/libmpich.a(info_getnth.o):
> > >>>>>>>>>>>> In
> > >>>>>>>>>>>> function
> > >>>>>>>>>>>> `MPIU_Thread_CS_exit_lockname_recursive_impl_':
> > >>>>>>>>>>>> info_getnth.c:(.text+0xf4): undefined reference to
> > >>>>>>>>>>>> `MPIU_Thread_mutex_unlock'
> > >>>>>>>>>>>> /home/matthias/Downloads/mpich2-1.3.1/lib/libmpich.a(info_getvallen.o):
> > >>>>>>>>>>>> In function
> > >>>>>>>>>>>> `MPIU_Thread_CS_enter_lockname_recursive_impl_':
> > >>>>>>>>>>>> info_getvallen.c:(.text+0x32): undefined reference to
> > >>>>>>>>>>>> `MPIU_Thread_mutex_lock'
> > >>>>>>>>>>>> /home/matthias/Downloads/mpich2-1.3.1/lib/libmpich.a(info_getvallen.o):
> > >>>>>>>>>>>> In function
> > >>>>>>>>>>>> `MPIU_Thread_CS_exit_lockname_recursive_impl_':
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> Any ideas here?
> > >>>>>>>>>>>> Matthias
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> -------- Original Message --------
> > >>>>>>>>>>>> Subject: Re: [mpich2-dev] undefined symbol: MPIR_Thread
> > >>>>>>>>>>>> Date: Tue, 1 Feb 2011 19:41:54 +0100
> > >>>>>>>>>>>> From: Anthony Chan<chan at mcs.anl.gov>
> > >>>>>>>>>>>> Reply-To: Anthony Chan<chan at mcs.anl.gov>,
> > >>>>>>>>>>>> "mpich2-dev at mcs.anl.gov"
> > >>>>>>>>>>>> <mpich2-dev at mcs.anl.gov>
> > >>>>>>>>>>>> To: mpich2-dev at mcs.anl.gov<mpich2-dev at mcs.anl.gov>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> mpich2-dev for mpich2 development not general MPICH
> > >>>>>>>>>>>> usage
> > >>>>>>>>>>>> questions,
> > >>>>>>>>>>>> please send your question to mpich-discuss at mcs.anl.gov.
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> ----- Original Message -----
> > >>>>>>>>>>>>> All,
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> when running a model with mpirun ./exe
> > >>>>>>>>>>>>> I get the following error:
> > >>>>>>>>>>>>> ./exe: symbol lookup error: ./exe: undefined
> > >>>>>>>>>>>>> symbol:
> > >>>>>>>>>>>>> MPIR_Thread
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> I have no idea how to deal with this. I use
> > >>>>>>>>>>>>> mpich2-1.3.1,
> > >>>>>>>>>>>>> compiled
> > >>>>>>>>>>>>> with
> > >>>>>>>>>>>>> gfortran, with the following libraries:
> > >>>>>>>>>>>>> gfortran -O2 -I/usr/local/mpich2-1.3.1/include
> > >>>>>>>>>>>>> -I/usr/local/mpich2-1.3.1/include
> > >>>>>>>>>>>>> -L/usr/local/mpich2-1.3.1/lib
> > >>>>>>>>>>>>> -lmpichf90 -lmpichf90 -lmpich -lopa -lmpl -lrt
> > >>>>>>>>>>>>> -lpthread
> > >>>>>>>>>>>> Did you use mpif90/mpif77 to link your code or just use
> > >>>>>>>>>>>> above
> > >>>>>>>>>>>> link
> > >>>>>>>>>>>> command which seems incomplete ?
> > >>>>>>>>>>>>
> > >>>>>>>>>>>> A.Chan
> > >>>>>>>>>>>>
> > >>>>>>>>>>>>> Could anybody help me with this?
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> Regards,
> > >>>>>>>>>>>>> Matthias
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> --
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> -------------------------------------------------------------
> > >>>>>>>>>>>>> FWO Post-doctoral Research Fellow
> > >>>>>>>>>>>>> Department of Earth& Environmental Sciences
> > >>>>>>>>>>>>> Physical and Regional Geography Research Group
> > >>>>>>>>>>>>> Regional climate studies
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> Celestijnenlaan 200E
> > >>>>>>>>>>>>> 3001 Heverlee (Leuven)
> > >>>>>>>>>>>>> BELGIUM
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> Tel: + 32 16 326424
> > >>>>>>>>>>>>> Fax: + 32 16 322980
> > >>>>>>>>>>>>>
> > >>>>>>>>>>>>> http://geo.kuleuven.be/aow/
> > >>>>>>>>>>>>> www.kuleuven.be/geography
> > >>>>>>>>>>>>> -------------------------------------------------------------
> > >>>>>>>>>> --
> > >>>>>>>>>>
> > >>>>>>>>>>
> > >>>>>>>>>> -------------------------------------------------------------
> > >>>>>>>>>> FWO Post-doctoral Research Fellow
> > >>>>>>>>>> Department of Earth& Environmental Sciences
> > >>>>>>>>>> Physical and Regional Geography Research Group
> > >>>>>>>>>> Regional climate studies
> > >>>>>>>>>>
> > >>>>>>>>>> Celestijnenlaan 200E
> > >>>>>>>>>> 3001 Heverlee (Leuven)
> > >>>>>>>>>> BELGIUM
> > >>>>>>>>>>
> > >>>>>>>>>> Tel: + 32 16 326424
> > >>>>>>>>>> Fax: + 32 16 322980
> > >>>>>>>>>>
> > >>>>>>>>>> http://geo.kuleuven.be/aow/
> > >>>>>>>>>> www.kuleuven.be/geography
> > >>>>>>>>>> -------------------------------------------------------------
> > >>>>>>>> --
> > >>>>>>>>
> > >>>>>>>>
> > >>>>>>>> -------------------------------------------------------------
> > >>>>>>>> FWO Post-doctoral Research Fellow
> > >>>>>>>> Department of Earth& Environmental Sciences
> > >>>>>>>> Physical and Regional Geography Research Group
> > >>>>>>>> Regional climate studies
> > >>>>>>>>
> > >>>>>>>> Celestijnenlaan 200E
> > >>>>>>>> 3001 Heverlee (Leuven)
> > >>>>>>>> BELGIUM
> > >>>>>>>>
> > >>>>>>>> Tel: + 32 16 326424
> > >>>>>>>> Fax: + 32 16 322980
> > >>>>>>>>
> > >>>>>>>> http://geo.kuleuven.be/aow/
> > >>>>>>>> www.kuleuven.be/geography
> > >>>>>>>> -------------------------------------------------------------
> > >>>>>> --
> > >>>>>>
> > >>>>>>
> > >>>>>> -------------------------------------------------------------
> > >>>>>> FWO Post-doctoral Research Fellow
> > >>>>>> Department of Earth& Environmental Sciences
> > >>>>>> Physical and Regional Geography Research Group
> > >>>>>> Regional climate studies
> > >>>>>>
> > >>>>>> Celestijnenlaan 200E
> > >>>>>> 3001 Heverlee (Leuven)
> > >>>>>> BELGIUM
> > >>>>>>
> > >>>>>> Tel: + 32 16 326424
> > >>>>>> Fax: + 32 16 322980
> > >>>>>>
> > >>>>>> http://geo.kuleuven.be/aow/
> > >>>>>> www.kuleuven.be/geography
> > >>>>>> -------------------------------------------------------------
> > >>>> --
> > >>>>
> > >>>>
> > >>>> -------------------------------------------------------------
> > >>>> FWO Post-doctoral Research Fellow
> > >>>> Department of Earth& Environmental Sciences
> > >>>> Physical and Regional Geography Research Group
> > >>>> Regional climate studies
> > >>>>
> > >>>> Celestijnenlaan 200E
> > >>>> 3001 Heverlee (Leuven)
> > >>>> BELGIUM
> > >>>>
> > >>>> Tel: + 32 16 326424
> > >>>> Fax: + 32 16 322980
> > >>>>
> > >>>> http://geo.kuleuven.be/aow/
> > >>>> www.kuleuven.be/geography
> > >>>> -------------------------------------------------------------
> > >> --
> > >>
> > >>
> > >> -------------------------------------------------------------
> > >> FWO Post-doctoral Research Fellow
> > >> Department of Earth& Environmental Sciences
> > >> Physical and Regional Geography Research Group
> > >> Regional climate studies
> > >>
> > >> Celestijnenlaan 200E
> > >> 3001 Heverlee (Leuven)
> > >> BELGIUM
> > >>
> > >> Tel: + 32 16 326424
> > >> Fax: + 32 16 322980
> > >>
> > >> http://geo.kuleuven.be/aow/
> > >> www.kuleuven.be/geography
> > >> -------------------------------------------------------------
> >
> > --
> >
> >
> > -------------------------------------------------------------
> > FWO Post-doctoral Research Fellow
> > Department of Earth& Environmental Sciences
> > Physical and Regional Geography Research Group
> > Regional climate studies
> >
> > Celestijnenlaan 200E
> > 3001 Heverlee (Leuven)
> > BELGIUM
> >
> > Tel: + 32 16 326424
> > Fax: + 32 16 322980
> >
> > http://geo.kuleuven.be/aow/
> > www.kuleuven.be/geography
> > -------------------------------------------------------------
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