Mark,
A bit of testing has revealed that it is the
"-DGMX_PREFER_STATIC_LIBS=ON" flag that makes the difference. With
this flag you end up with dynamic executables that do not work (I
think due to some glibc problem I have not yet tracked down) whereas
if I exclude this option then I get working static executables.
Thanks for all your help
Andy
Quoting Mark Abraham <mark.j.abra...@gmail.com> on Thu, 25 Jul 2013
14:18:35 +0200:
Vitaly has it upside down - it is normally required to build a static
binary on Crays.
cmake .. -DBUILD_SHARED_LIBS=off just works for building static
binaries for me with 4.6.3 on lindgren, a Cray XE6, when using
PrgEnv-gnu/4.0.46
Mark
On Wed, Jul 24, 2013 at 8:58 AM, Andrew R Turner
<a.tur...@epcc.ed.ac.uk> wrote:
Hi Vitaly,
Impossible just for v4.6.3? It was certainly possible to create static
executables for a Cray XE using v4.6.1 (I know, because I have done it). I
followed the same procedure for 4.6.3 and have only managed to get dynamic
executables (which do not work) hence my question.
I will have more of a dig into the build procedure but just wondered if
anyone was aware of anything that has changed between these two minor
versions (probably in the build process) that could have precipitated this
change in behaviour.
Cheers
Andy
Quoting "Dr. Vitaly Chaban" <vvcha...@gmail.com> on Sat, 20 Jul 2013
09:42:41 +0200:
Soneone said here that static versions are impossible for Cray...
Dr. Vitaly V. Chaban
On Fri, Jul 19, 2013 at 12:55 PM, Andrew R Turner
<a.tur...@epcc.ed.ac.uk>wrote:
Hi
I am having problems creating static versions of the GROMACS binaries for
a Cray XE6 (www.hector.ac.uk). The build process I am using is documented
at:
http://www.hector.ac.uk/**support/documentation/**
software/gromacs/compiling_4-**6-1_phase3.php<http://www.hector.ac.uk/support/documentation/software/gromacs/compiling_4-6-1_phase3.php>
and successfully produced static binaries for 4.6.1. Has something
changed
in the new version?
In particular, I am setting:
-DCMAKE_SKIP_RPATH=YES
-DBUILD_SHARED_LIBS=OFF
-DGMX_PREFER_STATIC_LIBS=ON
-DCMAKE_C_FLAGS="-static -O3 -ftree-vectorize -ffast-math -funroll-loops"
-DCMAKE_CXX_FLAGS="-static -O3 -ftree-vectorize -ffast-math
-funroll-loops"
but still get dynamic executables:
gmx@hector-xe6-5:~/4.6.3-**phase3/bin> ldd grompp
linux-vdso.so.1 => (0x00007fff00da2000)
libm.so.6 => /lib64/libm.so.6 (0x00007f50dc58f000)
libpthread.so.0 => /lib64/libpthread.so.0 (0x00007f50dc371000)
libAtpSigHandler.so.0 => /opt/cray/lib64/**libAtpSigHandler.so.0
(0x00007f50dc16b000)
libgfortran.so.3 => /opt/gcc/4.7.2/snos/lib64/**libgfortran.so.3
(0x00007f50dbe54000)
libscicpp_gnu.so.2 => /opt/cray/lib64/libscicpp_gnu.**so.2
(0x00007f50dbc4a000)
libsci_gnu_mp.so.2 => /opt/cray/lib64/libsci_gnu_mp.**so.2
(0x00007f50d72ec000)
libstdc++.so.6 => /opt/gcc/4.7.2/snos/lib64/**libstdc++.so.6
(0x00007f50d6fdf000)
libfftw3_mpi.so.3 => /opt/cray/lib64/libfftw3_mpi.**so.3
(0x00007f50d6dc6000)
libfftw3f_mpi.so.3 => /opt/cray/lib64/libfftw3f_mpi.**so.3
(0x00007f50d6bae000)
libfftw3_threads.so.3 => /opt/cray/lib64/libfftw3_**threads.so.3
(0x00007f50d69a6000)
libfftw3f_threads.so.3 =>
/opt/cray/lib64/libfftw3f_**threads.so.3
(0x00007f50d679d000)
libfftw3.so.3 => /opt/cray/lib64/libfftw3.so.3
(0x00007f50d63a2000)
libfftw3f.so.3 => /opt/cray/lib64/libfftw3f.so.3
(0x00007f50d5f7c000)
libmpich_gnu_47.so.1 => /opt/cray/lib64/libmpich_gnu_**47.so.1
(0x00007f50d5add000)
libmpichf90_gnu_47.so.1 =>
/opt/cray/lib64/libmpichf90_**gnu_47.so.1
(0x00007f50d58da000)
libmpl.so.0 => /opt/cray/lib64/libmpl.so.0 (0x00007f50d56d5000)
librt.so.1 => /lib64/librt.so.1 (0x00007f50d54cb000)
libxpmem.so.0 => /opt/cray/xpmem/default/lib64/**libxpmem.so.0
(0x00007f50d52c9000)
libdmapp.so.1 => /opt/cray/dmapp/default/lib64/**libdmapp.so.1
(0x00007f50d5092000)
libugni.so.0 => /opt/cray/ugni/default/lib64/**libugni.so.0
(0x00007f50d4e72000)
libpmi.so.0 => /opt/cray/pmi/default/lib64/**libpmi.so.0
(0x00007f50d4c51000)
libalpslli.so.0 => /usr/lib/alps/libalpslli.so.0
(0x00007f50d4a4e000)
libalpsutil.so.0 => /usr/lib/alps/libalpsutil.so.0
(0x00007f50d4849000)
libudreg.so.0 => /opt/cray/udreg/default/lib64/**libudreg.so.0
(0x00007f50d4641000)
libgomp.so.1 => /opt/gcc/4.7.2/snos/lib64/**libgomp.so.1
(0x00007f50d4432000)
libc.so.6 => /lib64/libc.so.6 (0x00007f50d40d3000)
libgcc_s.so.1 => /opt/gcc/4.7.2/snos/lib64/**libgcc_s.so.1
(0x00007f50d3ebd000)
/lib/ld64.so.1 => /lib64/ld-linux-x86-64.so.2
(0x00007f50dc812000)
libquadmath.so.0 => /opt/gcc/4.7.2/snos/lib64/**libquadmath.so.0
(0x00007f50d3c87000)
libcray_memcpy.so.0 => /opt/cray/lib64/libcray_**memcpy.so.0
(0x00007f50d3a84000)
libopa.so.1 => /opt/cray/lib64/libopa.so.1 (0x00007f50d3882000)
librca.so.0 => /opt/cray/rca/default/lib64/**librca.so.0
(0x00007f50d367d000)
libdl.so.2 => /lib64/libdl.so.2 (0x00007f50d3479000)
Any ideas?
Andy
==============================**===============
Dr Andrew R. Turner
e: a.tur...@epcc.ed.ac.uk
skype: aturner-epcc
t: +44 (0)131 651 3578
p: EPCC, University of Edinburgh EH9 3JZ
==============================**===============
--
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/**mailman/listinfo/gmx-users<http://lists.gromacs.org/mailman/listinfo/gmx-users>
* Please search the archive at http://www.gromacs.org/**
Support/Mailing_Lists/Search<http://www.gromacs.org/Support/Mailing_Lists/Search>before
posting!
* Please don't post (un)subscribe requests to the list. Use thewww
interface or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read
http://www.gromacs.org/**Support/Mailing_Lists<http://www.gromacs.org/Support/Mailing_Lists>
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
=============================================
Dr Andrew R. Turner
e: a.tur...@epcc.ed.ac.uk
skype: aturner-epcc
t: +44 (0)131 651 3578
p: EPCC, University of Edinburgh EH9 3JZ
=============================================
--
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use thewww interface
or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
=============================================
Dr Andrew R. Turner
e: a.tur...@epcc.ed.ac.uk
skype: aturner-epcc
t: +44 (0)131 651 3578
p: EPCC, University of Edinburgh EH9 3JZ
=============================================
--
The University of Edinburgh is a charitable body, registered in
Scotland, with registration number SC005336.
--
gmx-users mailing list gmx-users@gromacs.org
http://lists.gromacs.org/mailman/listinfo/gmx-users
* Please search the archive at
http://www.gromacs.org/Support/Mailing_Lists/Search before posting!
* Please don't post (un)subscribe requests to the list. Use the
www interface or send it to gmx-users-requ...@gromacs.org.
* Can't post? Read http://www.gromacs.org/Support/Mailing_Lists
