LAM: Problem compiling static binaries using mpicc

Dear Everybody,

I was trying to compile my program into a static binary with
lam/mpi.
The program compiles perfectly when compiled without the
static
switch. However, it gives the following errors when trying
to compile
with the -static switch.

I have seen a similar query on this mailing list, but no
satisfactory
replies. Please let me know if someone has faced a similar
problem and
succeded in solving it.

Thank you.
Regards,
Sourangshu
-------------------------------------------------------
[sourangshuramanujan parcode]$ make kernel
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -c
-o main.o
main.c
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -c
-o
fullstr.o fullstr.c
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -c
-o substr.o
substr.c
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -c
-o
substrlimitker.o substrlimitker.c
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -c
-o eig.o
eig.c
mpicc -static -I
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
/home/sourangshu/experiments/lib/gsl/gsl-install//lib -L
/home/sourangshu/experiments/lib/glpk/glpk-install//lib -o
kernel
main.o fullstr.o substr.o substrlimitker.o eig.o 
/home/sourangshu/experiments/lib/CLAPACK//tmglib_LINUX.a 
       
/home/sourangshu/experiments/lib/CLAPACK//lapack_LINUX.a
/home/sourangshu/experiments/lib/CLAPACK//blas_LINUX.a 
        /home/sourangshu/experiments/lib/CLAPACK//libF77.a
/home/sourangshu/experiments/lib/CLAPACK//libI77.a 
        -lgsl -lgslcblas -lglpk -lm -lc
/opt/lam/gnu/lib/liblam.a(ltdl.o)(.text+0x472): In function
`sys_dl_open':
: warning: Using 'dlopen' in statically linked applications
requires
at runtime the shared libraries from the glibc version used
for
linking
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x0):
In function `flockfile':
: multiple definition of `_IO_flockfile'
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)(.text+0x0):
first defined here
/usr/bin/ld: Warning: size of symbol `_IO_flockfile' changed
from 24
in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)
to 12 in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x0):
In function `flockfile':
: multiple definition of `__flockfile'
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)(.text+0x0):
first defined here
/usr/bin/ld: Warning: size of symbol `__flockfile' changed
from 24 in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)
to 12 in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x10):
In function `funlockfile':
: multiple definition of `_IO_funlockfile'
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)(.text+0x0):
first defined here
/usr/bin/ld: Warning: size of symbol `_IO_funlockfile'
changed from 24
in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)
to 12 in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x10):
In function `funlockfile':
: multiple definition of `__funlockfile'
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)(.text+0x0):
first defined here
/usr/bin/ld: Warning: size of symbol `__funlockfile' changed
from 24
in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)
to 12 in
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
/opt/lam/gnu/lib/liblam.a(kill.o)(.text+0x595): In function
`lam_tmpdir_init_opt':
: warning: Using 'getpwuid' in statically linked
applications requires
at runtime the shared libraries from the glibc version used
for
linking
/opt/lam/gnu/lib/liblam.a(lam_gethostby.o)(.text+0x11): In
function
`lam_gethostbyaddr':
: warning: Using 'gethostbyaddr' in statically linked
applications
requires at runtime the shared libraries from the glibc
version used
for linking
/opt/lam/gnu/lib/liblam.a(lam_gethostby.o)(.text+0x1): In
function
`lam_gethostbyname':
: warning: Using 'gethostbyname' in statically linked
applications
requires at runtime the shared libraries from the glibc
version used
for linking
collect2: ld returned 1 exit status
mpicc: No such file or directory
make: *** [kernel] Error 1


-- 
"I have never taken any exercise except sleeping and
resting." - Mark Twain

Sourangshu Bhattacharya
PhD Student,
Dept. of Computer Science & Automation,
Indian Institute of Science,
Bangalore, India.

http://peo
ple.csa.iisc.ernet.in/sourangshu
_______________________________________________
This list is archived at http://www.l
am-mpi.org/MailArchives/lam/

Hi Brian,

Thanks a lot for the help.

I got arround the problem by statically linking only those
libraries
which are not available on all nodes. Did this by removing
the .so
files in the library directory, so that only the .a files
were left. I
wonder if the compiler provides options to selectively
specify
libraries to be linked statically.

Sourangshu


On Jan 1, 2008 4:02 AM, Brian Barrett <brbarretlam-mpi.org> wrote:
>
> By default, LAM/MPI does a few things that are
un-friendly to static
> linking, including using some pthreads calls, using
dlopen, and playing some
> linker tricks.  I'd recommend compiling LAM/MPI with
the options:
>
>   --without-threads --without-memory-manager
>
> You'll still likely get some warnings about dlopen()
and gethostbyname(),
> but those are mostly harmless.
>
> Brian
>
> On Dec 27, 2007, at 12:34 PM, Sourangshu Bhattacharya
wrote:
>
> Dear Everybody,
>
> I was trying to compile my program into a static binary
with lam/mpi.
> The program compiles perfectly when compiled without
the static
> switch. However, it gives the following errors when
trying to compile
> with the -static switch.
>
> I have seen a similar query on this mailing list, but
no satisfactory
> replies. Please let me know if someone has faced a
similar problem and
> succeded in solving it.
>
> Thank you.
> Regards,
> Sourangshu
>
-------------------------------------------------------
> [sourangshuramanujan parcode]$ make kernel
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-c -o main.o
> main.c
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-c -o
> fullstr.o fullstr.c
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-c -o substr.o
> substr.c
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-c -o
> substrlimitker.o substrlimitker.c
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-c -o eig.o
> eig.c
> mpicc -static -I
>
/home/sourangshu/experiments/lib/gsl/gsl-install//include
-I
>
/home/sourangshu/experiments/lib/glpk/glpk-install//include
-L
> /home/sourangshu/experiments/lib/gsl/gsl-install//lib
-L
> /home/sourangshu/experiments/lib/glpk/glpk-install//lib
-o kernel
> main.o fullstr.o substr.o substrlimitker.o eig.o 
>
/home/sourangshu/experiments/lib/CLAPACK//tmglib_LINUX.a 
>        
/home/sourangshu/experiments/lib/CLAPACK//lapack_LINUX.a
> /home/sourangshu/experiments/lib/CLAPACK//blas_LINUX.a

>        
/home/sourangshu/experiments/lib/CLAPACK//libF77.a
> /home/sourangshu/experiments/lib/CLAPACK//libI77.a 
>         -lgsl -lgslcblas -lglpk -lm -lc
> /opt/lam/gnu/lib/liblam.a(ltdl.o)(.text+0x472): In
function `sys_dl_open':
> : warning: Using 'dlopen' in statically linked
applications requires
> at runtime the shared libraries from the glibc version
used for
> linking
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x0):
> In function `flockfile':
> : multiple definition of `_IO_flockfile'
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)(.text+0x0):
> first defined here
> /usr/bin/ld: Warning: size of symbol `_IO_flockfile'
changed from 24
> in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)
> to 12 in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x0):
> In function `flockfile':
> : multiple definition of `__flockfile'
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)(.text+0x0):
> first defined here
> /usr/bin/ld: Warning: size of symbol `__flockfile'
changed from 24 in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(flockfile.o)
> to 12 in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x10):
> In function `funlockfile':
> : multiple definition of `_IO_funlockfile'
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)(.text+0x0):
> first defined here
> /usr/bin/ld: Warning: size of symbol `_IO_funlockfile'
changed from 24
> in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)
> to 12 in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)(.text+0x10):
> In function `funlockfile':
> : multiple definition of `__funlockfile'
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)(.text+0x0):
> first defined here
> /usr/bin/ld: Warning: size of symbol `__funlockfile'
changed from 24
> in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
c.a(funlockfile.o)
> to 12 in
>
/usr/lib/gcc/x86_64-redhat-linux/3.4.5/../../../../lib64/lib
pthread.a(lockfile.o)
> /opt/lam/gnu/lib/liblam.a(kill.o)(.text+0x595): In
function
> `lam_tmpdir_init_opt':
> : warning: Using 'getpwuid' in statically linked
applications requires
> at runtime the shared libraries from the glibc version
used for
> linking
> /opt/lam/gnu/lib/liblam.a(lam_gethostby.o)(.text+0x11):
In function
> `lam_gethostbyaddr':
> : warning: Using 'gethostbyaddr' in statically linked
applications
> requires at runtime the shared libraries from the glibc
version used
> for linking
> /opt/lam/gnu/lib/liblam.a(lam_gethostby.o)(.text+0x1):
In function
> `lam_gethostbyname':
> : warning: Using 'gethostbyname' in statically linked
applications
> requires at runtime the shared libraries from the glibc
version used
> for linking
> collect2: ld returned 1 exit status
> mpicc: No such file or directory
> make: *** [kernel] Error 1
>
>
> --
> "I have never taken any exercise except sleeping
and resting." - Mark Twain
>
> Sourangshu Bhattacharya
> PhD Student,
> Dept. of Computer Science & Automation,
> Indian Institute of Science,
> Bangalore, India.
>
> http://peo
ple.csa.iisc.ernet.in/sourangshu
> _______________________________________________
> This list is archived at http://www.l
am-mpi.org/MailArchives/lam/
>
>
>
> --
>   Brian Barrett
>   LAM/MPI Developer
>   Make today a LAM/MPI day!
>
>
> _______________________________________________
> This list is archived at http://www.l
am-mpi.org/MailArchives/lam/
>



-- 
"I have never taken any exercise except sleeping and
resting." - Mark Twain

Sourangshu Bhattacharya
PhD Student,
Dept. of Computer Science & Automation,
Indian Institute of Science,
Bangalore, India.

http://peo
ple.csa.iisc.ernet.in/sourangshu
_______________________________________________
This list is archived at http://www.l
am-mpi.org/MailArchives/lam/