Professor W P Jones Department of Mechanical Engineering Imperial College London Exhibition Road London SW7 2AZ Tel: +44 (0)20 7594 7037/7033 Mobile +44 (0)776 495 9702 Fax: +44 (0)20 7594 5702 E-mail: w.jones@imperial.ac.uk web site: http://www.imperial.ac.uk/me
According to http://www.pgroup.com/userforum/viewtopic.php?t=539&view=previous&sid=50478c97090822511008dc30128ee908 and http://www.linuxquestions.org/questions/linux-software-2/gcc-linker-error-hidden-symbol-%60stat'-in-usr-lib-libc_nonshared-a-stat-os-755962/, it looks like a glibc issue.
It might help to verify that the libc you are getting in this case is the right one and it works. You are getting one that appears designed for static linkage. Is there no /usr/lib64/libc.so on your machine?
Jeff
On Tue, Jan 5, 2016 at 11:04 AM, Professor W P Jones <w.jones@imperial.ac.uk> wrote:
Hi Ken
I can send you the Makefile and output but the code has run successfully using various other flavours of mpi and compilers - mpich2, openmpi, intel mpi, gfortran and ifort etc. The example program pi3f90.f90 produces a similar error:
wpj@kelvin:f90 20 mpif90 pi3f90.f90
Encountered 0 errors, 0 warnings in file pi3f90.f90.
/usr/bin/ld: a.out: hidden symbol `lstat64' in /usr/lib64/libc_nonshared.a(lstat64.oS) is referenced by DSO
/usr/bin/ld: final link failed: Nonrepresentable section on output
Regards
Bill
Professor W P Jones
Department of Mechanical Engineering
Imperial College London
Exhibition Road
London SW7 2AZ
Tel: +44 (0)20 7594 7037/7033
Mobile +44 (0)776 495 9702
Fax: +44 (0)20 7594 5702
E-mail: w.jones@imperial.ac.uk
web site: http://www.imperial.ac.uk/me
On 05/01/16 18:08, Kenneth Raffenetti wrote:
Hi,
Do you have a make log from the application you are trying to build that you can share?
Separately, did the example cpi application build successfully at the end of the MPICH build?
Ken
On 01/05/2016 02:44 AM, Professor W P Jones wrote:
Hi_______________________________________________
I have successfully compiled and installed the version suggested.
However when I attempt to to use make to compile and link it fails on
the link step with the message:
/usr/bin/ld: boffin: hidden symbol `lstat64' in
/usr/lib64/libc_nonshared.a(lstat64.oS) is referenced by DSO
/usr/bin/ld: final link failed: Nonrepresentable section on output
make: [boffin] Error 1 (ignored)
mv: cannot stat `./x86_64/boffin': No such file or directory
make: *** [boffin] Error 1
The log files generated in the compiled and install are attached and
the output from mpiexec -info is:
HYDRA build details:
Version: 3.2
Release Date: Mon Jan 4 00:00:40 CST 2016
CC: icc
CXX: icpc
F77: lf95
F90: lf95
Configure options: '--disable-option-checking'
'--prefix=/opt/mpich' '--enable-fortran=all' 'FC=lf95' 'F77=lf95'
'--cache-file=/dev/null' '--srcdir=.' 'CC=icc' 'CFLAGS= -O2' 'LDFLAGS='
'LIBS=-lpthread ' 'CPPFLAGS=
-I/usr/local/src/mpich-master-v3.2-42-g67631a5c0e9e/src/mpl/include
-I/usr/local/src/mpich-master-v3.2-42-g67631a5c0e9e/src/mpl/include
-I/usr/local/src/mpich-master-v3.2-42-g67631a5c0e9e/src/openpa/src
-I/usr/local/src/mpich-master-v3.2-42-g67631a5c0e9e/src/openpa/src
-D_REENTRANT
-I/usr/local/src/mpich-master-v3.2-42-g67631a5c0e9e/src/mpi/romio/include'
'MPLLIBNAME=mpl'
Process Manager: pmi
Launchers available: ssh rsh fork slurm ll lsf
sge manual persist
Topology libraries available: hwloc
Resource management kernels available: user slurm ll lsf sge pbs
cobalt
Checkpointing libraries available:
Demux engines available: poll select
Regards
Bill
Professor W P Jones
Department of Mechanical Engineering
Imperial College London
Exhibition Road
London SW7 2AZ
Tel: +44 (0)20 7594 7037/7033
Mobile +44 (0)776 495 9702
Fax: +44 (0)20 7594 5702
E-mail: w.jones@imperial.ac.uk
web site: http://www.imperial.ac.uk/me
On 04/01/16 15:55, Kenneth Raffenetti wrote:
Can you try the latest nightly tarball on the MPICH website? I
committed a patch last night that I believe addresses the issue. I
don't have a system with the lf95 compiler to test, so I just went
from the documentation.
Ken
On 12/27/2015 07:49 PM, Professor W P Jones wrote:
Hi Pavan_______________________________________________
Here are all the existing log files.
Regards
Bill
Professor W P Jones
Department of Mechanical Engineering
Imperial College London
Exhibition Road
London SW7 2AZ
Tel: +44 (0)20 7594 7037/7033
Mobile +44 (0)776 495 9702
Fax: +44 (0)20 7594 5702
E-mail: w.jones@imperial.ac.uk
web site: http://www.imperial.ac.uk/me
On 28/12/15 00:40, Balaji, Pavan wrote:
Could you send us the log files listed in the README?
http://git.mpich.org/mpich.git/blob/HEAD:/README.vin#l235
-- Pavan
On Dec 27, 2015, at 5:34 AM, Professor W P Jones_______________________________________________
<w.jones@imperial.ac.uk> wrote:
Hi
I am trying to build MPICH-3.2 34 using Lahey/Fujitsu Linux64
Fortran Express Release L8.10b and I obtain the following error:
checking for Fortran 90 module output directory flag...
configure: error: FCMODOUTFLAG could not be determined but is
critical for the current Fortran build system
Please can you advise how this can be fixed?
Many thanks
Bill Jones
--
Professor W P Jones
Department of Mechanical Engineering
Imperial College London
Exhibition Road
London SW7 2AZ
Tel: +44 (0)20 7594 7037/7033
Mobile +44 (0)776 495 9702
Fax: +44 (0)20 7594 5702
E-mail: w.jones@imperial.ac.uk
web site: http://www.imperial.ac.uk/me
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