AMBER Archive (2008)

Subject: Re: AMBER: amber 9 compilation error with mvapich and intel compilers

From: David A. Case (case_at_biomaps.rutgers.edu)
Date: Sat Dec 20 2008 - 16:42:28 CST

On Sat, Dec 20, 2008, Amit Bajaj wrote:
>
> We are trying to compile Amber 9 (sander) with mvapich(we got it as part of
> mellanox OpenFabrics Enterprise Distribution for Linux on RHEL 4(64 bit) on
> Intel 5400 series processor

How did you configure the system? Amber 9's configure script does not
offer any option for mvapich, so I'm assuming you must have done some
editing of config.h (or something) on your own.

> /usr/mpi/intel/mvapich-1.0.1/lib/libmpich.a(viapriv.o)(.text+0x155): In function `viadev_ext_sendq_send':
> : undefined reference to `prepare_coalesced_pkt'

Note that these are undefined references coming from the mpi library,
which suggests that you are not linking in the correct libraries. Be
sure you can compile and run the test cases (or other simple MPI
programs) that come with you mpi installation.

...dac

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