From: Frank Thommen (structures-it_at_embl-heidelberg.de)
Date: Sat Nov 30 2013 - 14:51:55 CST
Hi,
I'm currently having probleme building charm++ (6.4.0) with MPI for namd
2.9 on an CentOS 6.2 cluster running the LSF queueing system. As MPI
version we are using PMPI (Platform MPI), which has been delivered with
the cluster:
# which mpiCC
/opt/platform_mpi/bin/mpiCC
# mpiCC --version
g++ (GCC) 4.4.6 20110731 (Red Hat 4.4.6-3)
Copyright (C) 2010 Free Software Foundation, Inc.
This is free software; see the source for copying conditions. There is NO
warranty; not even for MERCHANTABILITY or FITNESS FOR A PARTICULAR PURPOSE.
#
When running the charm++ build command (`env
MPICXX=/opt/platform_mpi/bin/mpiCC ./build charm++ mpi-linux-x86_64
--with-production`) the configure step reports the following checks as
failing:
===============================
checking "whether __int64 works"... "no"
checking "whether ucontext uses uc_regs"... "no"
checking "whether ucontext has pointer (v_regs) of vector type"... "no"
checking "whether GCC IA64 assembly works"... "no"
checking "whether PPC assembly works"... "no"
===============================
And finally exits with an error:
===============================
[...]
Error: Can not compile a MPI program
*** Please find detailed output in charmconfig.out ***
gmake[1]: *** [conv-autoconfig.h] Error 1
gmake[1]: Leaving directory
`/g/software/linux/pack/namd-2.9/SRC/NAMD_2.9_Source/charm-6.4.0/mpi-linux-x86_64/tmp'
gmake: *** [headers] Error 2
[...]
===============================
(The complete build output can be seen on http://pastebin.com/nBS62eWm)
In tmp/charmconfig.out above checks seem to relate to the following errors:
===============================
test.cpp:2: error: '__int64' does not name a type
test.cpp:6: error: 'struct mcontext_t' has no member named 'uc_regs'
test.cpp:2: error: expected constructor, destructor, or type conversion
before '*' token
test.cpp:4: Error: invalid character '=' in operand 1
test.cpp:4: Error: no such instruction: `eieio'
===============================
(The complete content of tmp/charmconfig.out can be found on
http://pastebin.com/abuXNHKW)
Any ideas about what is going wrong and/or how this can be fixed, is
highly appreciated.
Thank you very much in advance
Frank
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