On 30/01/2017 16:03, Satish Sherikar wrote:
Hi,
I dont understand where it is coming from. I have manually configured
HDF5 with same command as used by easybuild while configuration. But
at this time it ran successfully. By using eb command only it is
giving me an error.
If you required any other data i'll provide you.
Try running the 'eb' command you're using with '-x'. The resulting
output will include a set of commands to define the build environment as
it is set up by EasyBuild.
Maybe something in there is messing up the build?
I have attached config.log of manual configuration with same
configuration command.
The config.log you provided doesn't seem to be the correct one; that
configure command exited with exit status 0, and there was no mention of
libbat.so at all.
And can you please provide me how to create my own/dummy toolchain for
this cluster. ( Preffered intel toolchain)
There's (outdated) documentation available at
https://github.com/hpcugent/easybuild/wiki/Compiler-toolchains, but you
should reconsider this probably.
It's recommended to use a toolchain that is commonly used in the
community, see for example
http://easybuild.readthedocs.io/en/latest/Common-toolchains.html.
It seems like you also want to just use readily available
compilers/libraries rather than installing the toolchain itself using
EasyBuild?
regards,
Kenneth
Regards,
Satish
On Mon, Jan 30, 2017 at 6:19 PM, Robert Schmidt <rjesc...@gmail.com
<mailto:rjesc...@gmail.com>> wrote:
libbat.so is part of LSF. It is probably included somewhere in the
environment. It is pretty "messy" so perhaps there is an
LD_LIBRARY_PATH that was set before easybuild took over that
normally handled making sure it is available?
On Mon, Jan 30, 2017 at 7:48 AM Ward Poelmans <wpoel...@gmail.com
<mailto:wpoel...@gmail.com>> wrote:
Hi Satish,
On Mon, Jan 30, 2017 at 1:36 PM, Satish Sherikar
<sherikar1...@gmail.com <mailto:sherikar1...@gmail.com>> wrote:
> Hi Ward,
>
> I have attached config.log for HDF5.
>
> We are using mpiicc, mpiifort and mpiif90 in our cluster.
But it is taking
> FC=mpif90.
>
> I didnt understand how to change all these.
You are building HDF5 with the `goolf` toolchain. This
combines GCC
with OpenMPI and that's the reason why EB is using mpif90.
If you want to use the intel compilers, you must use the `intel`
toolchain. I see both have it in your PATH already. EB cannot
use this
directly: it wants a intel installation done by EB itself.
The HDF5 configure scripts fails because of:
configure:4476: mpicc -o conftest -O2 -march=native -fPIC
-I/gpfs1/home/ibm/.local/easybuild/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/include
-I/gpfs1/home/ibm/.local/easybuild/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2
.6-LAPACK-3.4.2/include
-I/gpfs1/home/ibm/.local/easybuild/software/FFTW/3.3.3-gompi-1.4.10/include
-I/gpfs1/home/ibm/.local/easybuild/software/zlib/1.2.7-goolf-1.4.10/include
-I/gpfs1/home/ibm/.local/easybuild/software/Szip/2.1-goolf-1.4
.10/include
-L/gpfs1/home/ibm/.local/easybuild/software/GCC/4.7.2/lib64
-L/gpfs1/home/ibm/.local/easybuild/software/GCC/4.7.2/lib
-L/gpfs1/home/ibm/.local/easybuild/software/OpenBLAS/0.2.6-gompi-1.4.10-LAPACK-3.4.2/lib
-L/gpfs1/home/ibm/
.local/easybuild/software/ScaLAPACK/2.0.2-gompi-1.4.10-OpenBLAS-0.2.6-LAPACK-3.4.2/lib
-L/gpfs1/home/ibm/.local/easybuild/software/FFTW/3.3.3-gompi-1.4.10/lib
-L/gpfs1/home/ibm/.local/easybuild/software/zlib/1.2.7-goolf-1.4.10/lib
-L/gpfs
1/home/ibm/.local/easybuild/software/Szip/2.1-goolf-1.4.10/lib
conftest.c -lm -lpthread >&5
configure:4480: $? = 0
configure:4487: ./conftest
./conftest: error while loading shared libraries: libbat.so:
cannot
open shared object file: No such file or directory
I've never heard of `libbat.so` and it doesn't get linked in.
Any idea
where it comes from?
Ward
