[Darshan-users] undefined reference to __wrap_printf

[Teng Wang]

Hi,


I'm having trouble when trying to statically link

Darshan with mpich3.3 applications following the instructions

here. Could you give me any suggestion on how to fix it?


http://www.mcs.anl.gov/research/projects/darshan/docs/darshan-runtime.html


Here is my steps:

1. Compile and install darshan 3.1.4

tar -xvzf darshan-3.1.4.tar.gz

cd darshan-3.1.4/darshan-runtime

./configure --with-mem-align=8 --with-log-path=<log directory>
--prefix=<install directory> --with-jobid-env=PBS_JOBID --disable-cuserid
CC=mpicc

make

make install


2. Create log directory, which successfully create the directory

darshan-mk-log-dirs.pl


3. Generate wrapper

darshan-gen-cc.pl `which mpicc` --output mpicc.darshan


4. Compile application (mpi-io-test.c) using mpicc.darshan

mpicc.darshan mpi-io-test.c -o mpi-io-test


After step 4, the following issue happened:

initthread.c:(.text+0xc59d): undefined reference to `__wrap_fprintf'

initthread.c:(.text+0xc5bd): undefined reference to `__wrap_fputs'

/global/homes/t/user/software_install/mpich3.3a-static/lib/libmpi.a(lib_libmpi_la-finalize.o):
In function `MPIR_Add_finalize':

finalize.c:(.text+0x226e): undefined reference to `__wrap_fputs'

finalize.c:(.text+0x227a): undefined reference to `__wrap_fflush'

finalize.c:(.text+0x2286): undefined reference to `__wrap_fflush'

/global/homes/t/user/software_install/mpich3.3a-static/lib/libmpi.a(lib_libmpi_la-util.o):
In function `MPIDI_OFI_control_handler':

util.c:(.text+0x17bc4): undefined reference to `__wrap_fprintf'

/global/homes/t/user/software_install/mpich3.3a-static/lib/libmpi.a(lib_libmpi_la-ch4_globals.o):
In function `MPID_Abort':

ch4_globals.c:(.text+0x38b): undefined reference to `__wrap_fputs'

ch4_globals.c:(.text+0x397): undefined reference to `__wrap_fflush'

ch4_globals.c:(.text+0x3a3): undefined reference to `__wrap_fflush'

/tmp/ccyntLoA.o: In function `main':

mpi-io-test.c:(.text+0x5ae): undefined reference to `__wrap_printf'

mpi-io-test.c:(.text+0x819): undefined reference to `__wrap_printf'

/global/homes/t/user/software_install/mpich3.3a-static/lib/libmpi.a(lib_libmpi_la-contextid.o):
In function `MPIR_Free_contextid':

contextid.c:(.text+0x1c3f): undefined reference to `__wrap_fputs'

contextid.c:(.text+0x1c4b): undefined reference to `__wrap_fflush'

contextid.c:(.text+0x1c57): undefined reference to `__wrap_fflush'



mpicc.darshan -show mpi-io-test.c -o mpi-io-test gave:


gcc -L/usr/lib64/slurmpmi
-L/global/common/cori/software/libfabric/1.4.1/gnu/lib mpi-io-test.c -o
mpi-io-test -L/global/homes/t/user/software_install/darshan/lib -ldarshan
-lz
-Wl,@/global/homes/t/user/software_install/darshan/share/ld-opts/darshan-base-ld-opts
-I/global/homes/t/user/software_install/mpich3.3a-static/include
-L/global/homes/t/user/software_install/mpich3.3a-static/lib -lmpi -lpmi
-lpmi -lpthread -lfabric -lrt -lpmi
-L/global/homes/t/user/software_install/darshan/lib -Wl,--start-group
-ldarshan -ldarshan-stubs -Wl,--end-group -lz -lrt -lpthread


The strange thing is when I do

nm libdarshan.a, it did show the functions (e.g. __wrap_printf) were linked
to

libdarshan.a.


*0000000000002bf0 T __wrap__IO_getc*

*0000000000002d80 T __wrap__IO_putc*

*00000000000030b0 T __wrap___isoc99_fscanf*

*0000000000001990 T __wrap_fclose*

*00000000000011d0 T __wrap_fdopen*

*0000000000001810 T __wrap_fflush*

*0000000000002a60 T __wrap_fgetc*

*0000000000003690 T __wrap_fgets*

*0000000000000db0 T __wrap_fopen*

*0000000000000fc0 T __wrap_fopen64*

*00000000000026b0 T __wrap_fprintf*

*0000000000001c80 T __wrap_fputc*

*0000000000001fa0 T __wrap_fputs*

*00000000000028d0 T __wrap_fread*

*00000000000013d0 T __wrap_freopen*

*00000000000015f0 T __wrap_freopen64*

*00000000000032d0 T __wrap_fscanf*

*0000000000003920 T __wrap_fseek*

*0000000000003a30 T __wrap_fseeko*

*0000000000003b40 T __wrap_fseeko64*

*0000000000003c50 T __wrap_fsetpos*


Thanks,

Teng
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