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OpenMx_installation_error.txt [6] | 17.17 KB |
Hi,
I am trying to install OpenMx on a linux red-hat 64 bit system, but I get an error message (see summary below and full output in attached file). I have tried this under R version 2.12.2 and also the latest R version R 2.14.2.
The same error message occurs when installing from the source.
Can you help?
Thanks in advance,
Rachel
> source('https://openmx.ssri.psu.edu/getOpenMx.R')
trying URL 'https://openmx.ssri.psu.edu/packages/src/contrib/OpenMx_1.2.0-1926.tar.gz'
Content type 'application/x-gzip' length 7212786 bytes (6.9 Mb)
opened URL
downloaded 6.9 Mb
- installing source package ‘OpenMx’ ...
checking for gcc... gcc
checking whether the C compiler works... yes
checking for C compiler default output file name... a.out
checking for suffix of executables...
checking whether we are cross compiling... no
checking for suffix of object files... o
checking whether we are using the GNU C compiler... yes
checking whether gcc accepts -g... yes
checking for gcc option to accept ISO C89... none needed
checking for gcc option to support OpenMP... unsupported
checking whether gcc is installed... yes
checking build system type... i686-pc-linux-gnu
checking host system type... i686-pc-linux-gnu
checking if gcc accepts -dumpversion option... yes
checking gcc version... 3.4.6
checking for gawk... gawk
checking for inst/npsol/linux/x86/gcc3.4/libnpsol.a... yes
configure: creating ./config.status
config.status: creating src/Makevars
config.status: executing src/omxSymbolTable.h commands
config.status: executing src/omxSymbolTable.c commands
** libs
gcc -std=gnu99 -I/mnt/axonraid/rbrouwer/OpenMx/R-2.14.1/include -I/usr/local/include -Wall -fpic -I/usr/local/Cluster-Apps/netcdf/gcc/64/3.6.0/include -c merge.c -o merge.o
gcc -std=gnu99 -I/mnt/axonraid/rbrouwer/OpenMx/R-2.14.1/include -I/usr/local/include -Wall -fpic -I/usr/local/Cluster-Apps/netcdf/gcc/64/3.6.0/include -c npsolWrap.c -o npsolWrap.o
In file included from omxAlgebra.h:42,
from omxMatrix.h:44,
from omxState.h:64,
from npsolWrap.h:20,
from npsolWrap.c:24:
omxSymbolTable.h:77:7: warning: no newline at end of file
>> many similar warnings as above
....
>> many similar error messages as below
sadmvn.f:1142:
E = BVN(A(:,TID),B(:,TID),INFI(:,TID),COV(2,TID)/D)
1 2
Too few elements (1 missing) as of (2) for array reference at (1)
sadmvn.f:1142:
E = BVN(A(:,TID),B(:,TID),INFI(:,TID),COV(2,TID)/D)
1 2
Invalid token at (2) in expression or subexpression at (1)
sadmvn.f:1142:
E = BVN(A(:,TID),B(:,TID),INFI(:,TID),COV(2,TID)/D)
1 2
Null element at (1) for array reference at (2)
sadmvn.f:1142:
E = BVN(A(:,TID),B(:,TID),INFI(:,TID),COV(2,TID)/D)
1 2
Too few elements (1 missing) as of (2) for array reference at (1)
sadmvn.f:1142:
E = BVN(A(:,TID),B(:,TID),INFI(:,TID),COV(2,TID)/D)
1 2
Invalid token at (2) in expression or subexpression at (1)
sadmvn.f:1134: confused by earlier errors, bailing out
make: *** [sadmvn.o] Error 1
ERROR: compilation failed for package ‘OpenMx’
* removing ‘/mnt/axonraid/rbrouwer/OpenMx/R-2.14.1/library/OpenMx’
The downloaded packages are in
‘/tmp/RtmpCPnLTR/downloaded_packages’
Updating HTML index of packages in '.Library'
Making packages.html ... done
Warning message:
In install.packages(pkgs = c("OpenMx"), repos = repos) :
installation of package ‘OpenMx’ had non-zero exit status