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Type 'q()' to quit R. > > options(STERM='iESS', str.dendrogram.last="'", editor='emacsclient', show.error.locations=TRUE) > TARGETLIB <- "/crmda/tools/lib64/R/3.3/site-library" > .libPaths(c(.libPaths(), TARGETLIB)) > sessionInfo() R version 3.3.1 (2016-06-21) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Red Hat Enterprise Linux Server release 6.4 (Santiago) locale: [1] C attached base packages: [1] stats graphics grDevices utils datasets methods base > TRYLOCAL <- FALSE > if (TRYLOCAL){ + TARGETLIB <- paste0("/tmp", TARGETLIB) + dir.create(TARGETLIB, recursive = TRUE) + print(TARGETLIB) + } > CRAN <- "http://rweb.crmda.ku.edu/cran" > KRAN <- "http://rweb.crmda.ku.edu/kran" > BIOC <- "http://www.bioconductor.org/packages/3.3/bioc" > options(repos = c(KRAN, CRAN, BIOC)) > installPackages <- function(x, replace = FALSE){ + if (replace) { + install.packages(x, lib = TARGETLIB) + return() + } + installedPackages <- rownames (installed.packages() ) + alreadyHave <- x %in% installedPackages + if (sum(!alreadyHave) > 0) install.packages(x[!alreadyHave], + lib = TARGETLIB) + print(x[!alreadyHave]) + } > failsfrominstall <- c("OpenMx") > install.packages(failsfrominstall, lib=TARGETLIB) trying URL 'http://rweb.crmda.ku.edu/cran/src/contrib/OpenMx_2.6.9.tar.gz' Content type 'application/x-gzip' length 2998542 bytes (2.9 MB) ================================================== downloaded 2.9 MB * installing *source* package 'OpenMx' ... ** package 'OpenMx' successfully unpacked and MD5 sums checked Change default C/C++ compiler and default compile flags by editing ~/.R/Makevars ** libs g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c Compute.cpp -o Compute.o g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c ComputeGD.cpp -o ComputeGD.o g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c ComputeNR.cpp -o ComputeNR.o g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c ComputeSD.cpp -o ComputeSD.o g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c FellnerFitFunction.cpp -o FellnerFitFunction.o In file included from /panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include/Rcpp.h:85, from RAMInternal.h:10, from FellnerFitFunction.cpp:29: /panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include/Rcpp/algorithm.h:153: warning: type qualifiers ignored on function return type /panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include/Rcpp/algorithm.h:154: warning: type qualifiers ignored on function return type /panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include/Rcpp/algorithm.h:162: warning: type qualifiers ignored on function return type /panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include/Rcpp/algorithm.h:163: warning: type qualifiers ignored on function return type cc1plus: warning: unrecognized command line option "-Wno-unused-local-typedefs" g++ -std=c++0x -I/tools/cluster/6.2/R/3.3.1/lib64/R/include -I/usr/local/include -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/Rcpp/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/RcppEigen/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/StanHeaders/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/BH/include" -I"/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/rpf/include" -fopenmp -Wall -Wextra -Wno-unknown-pragmas -Wno-unused-parameter -Wvla -Wno-unused-local-typedefs -fpic -g -O2 -c ba81quad.cpp -o ba81quad.o ba81quad.cpp: In member function 'void ba81NormalQuad::setStructure(double, int, Eigen::ArrayBase&, Eigen::MatrixBase&, Eigen::MatrixBase&)': ba81quad.cpp:502: error: expected initializer before ':' token ba81quad.cpp:810: error: expected primary-expression at end of input ba81quad.cpp:810: error: expected ';' at end of input ba81quad.cpp:810: error: expected primary-expression at end of input ba81quad.cpp:810: error: expected ')' at end of input ba81quad.cpp:810: error: expected statement at end of input ba81quad.cpp:810: error: expected '}' at end of input ba81quad.cpp:810: error: expected '}' at end of input At global scope: cc1plus: warning: unrecognized command line option "-Wno-unused-local-typedefs" make: *** [ba81quad.o] Error 1 ERROR: compilation failed for package 'OpenMx' * removing '/panfs/pfs.acf.ku.edu/crmda/tools/lib64/R/3.3/site-library/OpenMx' The downloaded source packages are in '/library/tmp/RtmpzTnTgj/downloaded_packages' Warning message: In install.packages(failsfrominstall, lib = TARGETLIB) : installation of package 'OpenMx' had non-zero exit status >