[rbrouwer@axon R-2.14.1]$ bin/R R version 2.14.1 (2011-12-22) Copyright (C) 2011 The R Foundation for Statistical Computing ISBN 3-900051-07-0 Platform: i686-pc-linux-gnu (64-bit) R is free software and comes with ABSOLUTELY NO WARRANTY. You are welcome to redistribute it under certain conditions. Type 'license()' or 'licence()' for distribution details. Natural language support but running in an English locale R is a collaborative project with many contributors. Type 'contributors()' for more information and 'citation()' on how to cite R or R packages in publications. Type 'demo()' for some demos, 'help()' for on-line help, or 'help.start()' for an HTML browser interface to help. Type 'q()' to quit R. > source('http://openmx.psyc.virginia.edu/getOpenMx.R') trying URL 'http://openmx.psyc.virginia.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 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 omxAlgebra.c -o omxAlgebra.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebra.c:30: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxAlgebraFunctions.c -o omxAlgebraFunctions.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxAlgebraFunctions.c:30: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxAlgebraObjective.c -o omxAlgebraObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxAlgebraObjective.c:17: omxSymbolTable.h:77:7: warning: no newline at end of file g77 -fpic -g -O2 -c omxBLAS.f -o omxBLAS.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 omxData.c -o omxData.o In file included from omxAlgebra.h:42, from omxData.h:44, from omxData.c:27: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxExponential.c -o omxExponential.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxExponential.c:35: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxExportBackendState.c -o omxExportBackendState.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxState.h:64, from omxExportBackendState.c:24: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxFIMLObjective.c -o omxFIMLObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxFIMLObjective.c:24: omxSymbolTable.h:77:7: warning: no newline at end of file omxFIMLObjective.c: In function `omxCallJointFIMLObjective': omxFIMLObjective.c:223: warning: ignoring #pragma omp parallel omxFIMLObjective.c: In function `omxCallFIMLObjective': omxFIMLObjective.c:313: warning: ignoring #pragma omp parallel omxFIMLObjective.c: In function `omxCallFIMLOrdinalObjective': omxFIMLObjective.c:416: warning: ignoring #pragma omp parallel 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 omxFIMLSingleIteration.c -o omxFIMLSingleIteration.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxFIMLSingleIteration.c:25: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxHessianCalculation.c -o omxHessianCalculation.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxState.h:64, from npsolWrap.h:20, from omxHessianCalculation.c:24: omxSymbolTable.h:77:7: warning: no newline at end of file omxHessianCalculation.c: In function `doHessianCalculation': omxHessianCalculation.c:248: warning: ignoring #pragma omp parallel omxHessianCalculation.c:255: warning: ignoring #pragma omp parallel 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 omxImportFrontendState.c -o omxImportFrontendState.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxState.h:64, from omxImportFrontendState.c:25: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxLISRELObjective.c -o omxLISRELObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxObjective.h:43, from omxLISRELObjective.c:17: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxMLObjective.c -o omxMLObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxMLObjective.c:23: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxMatrix.c -o omxMatrix.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxMatrix.c:28: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxNPSOLSpecific.c -o omxNPSOLSpecific.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxNPSOLSpecific.h:20, from omxNPSOLSpecific.c:21: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxObjective.c -o omxObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxObjective.h:43, from omxObjective.c:31: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxObjectiveTable.c -o omxObjectiveTable.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxSymbolTable.h:10, from omxObjectiveTable.c:23: omxSymbolTable.h:77:7: warning: no newline at end of file In file included from omxObjectiveTable.c:23: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxOptimizer.c -o omxOptimizer.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxState.h:64, from omxOptimizer.c:26: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxRAMObjective.c -o omxRAMObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxObjective.h:43, from omxRAMObjective.c:17: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxRObjective.c -o omxRObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxRObjective.c:23: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxRowObjective.c -o omxRowObjective.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxRowObjective.c:24: omxSymbolTable.h:77:7: warning: no newline at end of file omxRowObjective.c: In function `omxCallRowObjective': omxRowObjective.c:182: warning: ignoring #pragma omp parallel 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 omxSadmvnWrapper.c -o omxSadmvnWrapper.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxAlgebraFunctions.h:27, from omxSadmvnWrapper.c:24: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxState.c -o omxState.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxState.h:64, from omxState.c:27: omxSymbolTable.h:77:7: warning: no newline at end of file 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 omxSymbolTable.c -o omxSymbolTable.o In file included from omxAlgebra.h:42, from omxMatrix.h:44, from omxSymbolTable.h:10, from omxSymbolTable.c:7: omxSymbolTable.h:77:7: warning: no newline at end of file In file included from omxSymbolTable.c:7: omxSymbolTable.h:77:7: warning: no newline at end of file omxSymbolTable.c:66:3: warning: no newline at end of file g77 -fpic -g -O2 -c sadmvn.f -o sadmvn.o sadmvn.f: In function `mvnfnc': sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Null element at (1) for array reference at (2) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Too few elements (1 missing) as of (2) for array reference at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Invalid token at (2) in expression or subexpression at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Null element at (1) for array reference at (2) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Too few elements (1 missing) as of (2) for array reference at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Invalid token at (2) in expression or subexpression at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Null element at (1) for array reference at (2) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Too few elements (1 missing) as of (2) for array reference at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Invalid token at (2) in expression or subexpression at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Null element at (1) for array reference at (2) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 1 2 Too few elements (1 missing) as of (2) for array reference at (1) sadmvn.f:1135: & A(:,TID),B(:,TID),INFI(:,TID),COV(:,TID),D,E) 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: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: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 > traceback() No traceback available