From: Jacob Poehlsgaard (jacobp_at_bmb.sdu.dk)
Date: Thu Sep 07 2006 - 06:51:41 CDT
Dear NAMD list users
We just had our old cluster upgraded to a 800 core intel woodcrest system.
Unfortunately the EMT64 binary (
<http://www.ks.uiuc.edu/Development/Download/download.cgi?UserID=&AccessCode
=&ArchiveID=902> Linux-amd64) is unstable and crashes about 45 minutes into
a test simulation that completes without error on the generic Linux-i686
binary.
Obviously we'd like to run a version optimized for our cluster, so we tried
compiling from the source. However this failed when compiling charm++, with
a rather esoteric error: "MsgPacker.h:86: error: extra qualification
‘MsgPacker::’ on member ‘MsgPacker’"
Any good suggestions for getting around this? I'm told we have all kinds of
compilers installed and ready to go :o)
More error info:
---------------------------------
creating ../../../../lib/libmoduleCkMulticast.a/bin/cp CkMulticast.decl.h
./../../../include /bin/cp CkMulticast.def.h ../../../../include /bin/cp
ckmulticast.h ../../../../include
gmake[2]: Leaving directory
`/tmp/NAMD-TOP/NAMD_2.6_Source/charm-5.9/net-linux-amd64/tmp/libs/ck-libs/mu
lticast'
./bin/charmc -O -DCMK_OPTIMIZE=1 -nobs -c -I. ComlibManager.C
MsgPacker.h:86: error: extra qualification ‘MsgPacker::’ on member
‘MsgPacker’
Fatal Error by charmc in directory
/tmp/NAMD-TOP/NAMD_2.6_Source/charm-5.9/net-linux-amd64/tmp
Command g++ -fPIC -m64 -I../bin/../include -D__CHARMC__=1
-DCMK_OPTIMIZE=1 -I. -O -c ComlibManager.C -o ComlibManager.o returned error
code 1 charmc exiting...
gmake[1]: *** [ComlibManager.o] Error 1
gmake[1]: Leaving directory
`/tmp/NAMD-TOP/NAMD_2.6_Source/charm-5.9/net-linux-amd64/tmp'
gmake: *** [charm++] Error 2
-------------------------------------------------
Charm++ NOT BUILT.
---------------------------------
Jacob Poehlsgaard
PhD student,
Institute for Biochemistry and Molecular Biology
University of Southern Denmark
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