[slurm-dev] Re: Compile of 15.08.0 fails on trusty missing mpio.h

[dani]

You shouldn't need openmpi preinstalled with recent slurm.



On 10/09//2015 21:40, Michael Gutteridge wrote:

Slurm build pmi2, and then when building openmpi you supply --with-pmi and point it to the pmi dir created by slurm

Hi

This really feels like an obvious one, but I'm having a devil of a time
sorting out how to address this. I'm building Slurm 15.08.0 on Ubuntu
14.04 LTS with a minimal set of configure options:

--sysconfdir=/etc/slurm-llnl --localstatedir=/var/run/slurm-llnl
--with-munge --without-blcr --enable-pam --without-rpath --disable-debug

Configure succeeds OK, but make fails a little while in during the build
of the HDF5 components:

Making all in libsh5util_old
make[8]: Entering directory
`/home/build/trusty/slurm-llnl/15.08.0/build/slurm-15.08.0/obj-x86_64-linux-gnu/src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old'
/bin/bash ../../../../../../libtool  --tag=CC   --mode=compile gcc
-DHAVE_CONFIG_H -I.
-I../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old
-I../../../../../.. -I../../../../../../slurm  -I../../../../../../..
-I../../../../../../../src/common -I. -I/usr/lib/openmpi/include -I
/usr/include  -g -O2 -fstack-protector --param=ssp-buffer-size=4
-Wformat -Werror=format-security -pthread -fno-gcse -c -o sh5util.lo
../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old/sh5util.c
libtool: compile:  gcc -DHAVE_CONFIG_H -I.
-I../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old
-I../../../../../.. -I../../../../../../slurm -I../../../../../../..
-I../../../../../../../src/common -I. -I/usr/lib/openmpi/include -I
/usr/include -g -O2 -fstack-protector --param=ssp-buffer-size=4 -Wformat
-Werror=format-security -pthread -fno-gcse -c
../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old/sh5util.c
  -fPIC -DPIC -o .libs/sh5util.o
In file included from /usr/include/hdf5.h:24:0,
                  from
../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old/hdf5_api.h:61,
                  from
../../../../../../../src/plugins/acct_gather_profile/hdf5/sh5util/libsh5util_old/sh5util.c:72:
/usr/include/H5public.h:65:21: fatal error: mpio.h: No such file or
directory
  #   include <mpio.h>
                      ^
compilation terminated.
make[8]: *** [sh5util.lo] Error 1


I have both OpenMPI (1.6.5) and MPICH (3.0.4) development packages
installed- mpio.h is present in /usr/include/mpich/mpio.h.  If I add
"CFLAGS=-I/usr/include/mpich" then the build succeeds.  That sort of
feels kludgy- I'm of the opinion that the configure should have picked
that up or that I don't, in fact, have the correct development headers
installed.  We'd never needed/used MPICH in past... I thought OpenMPI
would have supplied mpio.h.

Does anyone have any insights into this?  Should configure pick it up?
Is it a quirk of Ubuntu?

Thanks much

Michael

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