Subject pretty much says it all. I am running 64-bit Ubuntu 8.04, i.e. Hardy
Heron, have openmpi installed, and get the following error message with
attempted install of Rmpi. sessionInfo() follows.
Mark
checking for ANSI C header files... yes
checking for sys/types.h... yes
checking for sys/stat.h... yes
checking for stdlib.h... yes
checking for string.h... yes
checking for memory.h... yes
checking for strings.h... yes
checking for inttypes.h... yes
checking for stdint.h... yes
checking for unistd.h... yes
checking mpi.h usability... no
checking mpi.h presence... no
checking for mpi.h... no
Try to find libmpi.so or libmpich.a
checking for main in -lmpi... yes
checking for openpty in -lutil... yes
checking for main in -lpthread... yes
configure: creating ./config.status
config.status: creating src/Makevars
** libs
gcc -std=gnu99 -I/home/mkimpel/R_HOME/R-patched/R-build/lib64/R/include
-DPACKAGE_NAME=\"\" -DPACKAGE_TARNAME=\"\" -DPACKAGE_VERSION=\"\"
-DPACKAGE_STRING=\"\" -DPACKAGE_BUGREPORT=\"\" -DSTDC_HEADERS=1
-DHAVE_SYS_TYPES_H=1 -DHAVE_SYS_STAT_H=1 -DHAVE_STDLIB_H=1 -DHAVE_STRING_H=1
-DHAVE_MEMORY_H=1 -DHAVE_STRINGS_H=1 -DHAVE_INTTYPES_H=1 -DHAVE_STDINT_H=1
-DHAVE_UNISTD_H=1 -DUNKNOWN -fPIC -I/usr/local/include -fpic -g -O2 -c
conversion.c -o conversion.o
In file included from conversion.c:18:
Rmpi.h:1:17: error: mpi.h: No such file or directory
In file included from conversion.c:18:
Rmpi.h:14: error: expected '=', ',', ';', 'asm' or '__attribute__' before
'mpitype'
make: *** [conversion.o] Error 1
chmod: cannot access `/home/mkimpel/R_HOME/site-library-2.7.0/Rmpi/libs/*':
No such file or directory
ERROR: compilation failed for package 'Rmpi'
** Removing '/home/mkimpel/R_HOME/site-library-2.7.0/Rmpi'
The downloaded packages are in
/tmp/RtmppcK0FI/downloaded_packages
Warning message:
> sessionInfo()
R version 2.7.0 Patched (2008-05-04 r45620)
x86_64-unknown-linux-gnu
locale:
LC_CTYPE=en_US.UTF-8;LC_NUMERIC=C;LC_TIME=en_US.UTF-8;LC_COLLATE=en_US.UTF-8;LC_MONETARY=C;LC_MESSAGES=en_US.UTF-8;LC_PAPER=en_US.UTF-8;LC_NAME=C;LC_ADDRESS=C;LC_TELEPHONE=C;LC_MEASUREMENT=en_US.UTF-8;LC_IDENTIFICATION=C
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] graph_1.18.0
loaded via a namespace (and not attached):
[1] cluster_1.11.10 tcltk_2.7.0 tools_2.7.0
--
Mark W. Kimpel MD ** Neuroinformatics ** Dept. of Psychiatry
Indiana University School of Medicine
15032 Hunter Court, Westfield, IN 46074
(317) 490-5129 Work, & Mobile & VoiceMail
(317) 663-0513 Home (no voice mail please)
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