[Darshan-users] undefined reference to __wrap_printf

[Shane Snyder]

Hi Teng,

Thanks for reporting this. This is a really strange issue, but I can 
actually reproduce it, too. I'm going to keep digging and see if I can 
find the problem. Will keep you updated.

The strange thing is that I was able to use version 3.1.4 successfully 
right before making the release available (i.e., the log @ 
darshan-test/example-output/mpi-io-test-x86_64-3.1.4.darshan was 
generated using version 3.1.4 with static linking). Also strange is that 
our nightly testing is not catching this issue...

FYI, version 3.1.3 and earlier work fine for me if you really need a 
quick resolution -- version 3.1.4 just fixed a couple of non-critical 
bugs in some darshan log parsing utilities, so there shouldn't be much 
functionally different between the versions.

--Shane

On 07/20/2017 12:43 PM, Teng Wang wrote:
>
> 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 <http://darshan-mk-log-dirs.pl/>
>
>
> 3. Generate wrapper
>
> darshan-gen-cc.pl <http://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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