* using log directory 'd:/Rcompile/CRANpkg/local/2.9/multic.Rcheck' * using R version 2.9.0 Under development (unstable) (2009-02-22 r47985) * using session charset: ISO8859-1 * checking for file 'multic/DESCRIPTION' ... OK * checking extension type ... Package * this is package 'multic' version '0.3.2' * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'multic' can be installed ... ERROR Installation failed. The installation logfile: * Installing *source* package 'multic' ... ** libs making DLL ... make[1]: Entering directory `/cygdrive/d/Rcompile/CRANpkg/local/2.9/multic/src' g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Calculate.cpp -o Calculate.o Calculate.cpp:92:23: error: sys/times.h: No such file or directory Calculate.cpp: In member function 'void Calculate::main_fun(TraitMarkerCov_par*, InitValue_par*)': Calculate.cpp:212: error: aggregate 'tms tbuffer' has incomplete type and cannot be defined Calculate.cpp:368: error: 'times' was not declared in this scope Calculate.h: At global scope: Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used make[1]: *** [Calculate.o] Error 1 g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Composite.cpp -o Composite.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c InitValue_par.cpp -o InitValue_par.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Least.cpp -o Least.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Lib.cpp -o Lib.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Likelihoodfun.cpp -o Likelihoodfun.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:14: warning: 'loci_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Maxfun.cpp -o Maxfun.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Maxfun_add.cpp -o Maxfun_add.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:14: warning: 'loci_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Maxfun_source.cpp -o Maxfun_source.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Model.cpp -o Model.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c ReadFamilyData.cpp -o ReadFamilyData.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Robust_Variance.cpp -o Robust_Variance.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:14: warning: 'loci_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c ShrinkData.cpp -o ShrinkData.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c TraitMarkerCov_par.cpp -o TraitMarkerCov_par.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c Vector.cpp -o Vector.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c calculateCorrelations.cpp -o calculateCorrelations.o calculateCorrelations.cpp: In function 'int* getVarianceIndices(Sint)': calculateCorrelations.cpp:97: warning: format '%ld' expects type 'long int', but argument 3 has type 'Sint' g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c extractLoci.cpp -o extractLoci.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c fixibd.cpp -o fixibd.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c fullId.cpp -o fullId.o fullId.cpp: In function 'void fullId(char**, Sint*, Sint*, Sint*, Sint*, char**, Sint*, Sint*)': fullId.cpp:18: warning: format '%ld' expects type 'long int', but argument 3 has type 'int' fullId.cpp:18: warning: format '%ld' expects type 'long int', but argument 4 has type 'int' fullId.cpp:36: warning: format '%ld' expects type 'long int', but argument 3 has type 'int' fullId.cpp:36: warning: format '%ld' expects type 'long int', but argument 4 has type 'Sint' fullId.cpp:40: warning: format '%ld' expects type 'long int', but argument 3 has type 'int' fullId.cpp:40: warning: format '%ld' expects type 'long int', but argument 4 has type 'Sint' g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c getFamilySizes.cpp -o getFamilySizes.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c getResidualPlacement.cpp -o getResidualPlacement.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c getShareOutOrder.cpp -o getShareOutOrder.o getShareOutOrder.cpp: In function 'SEXPREC* getShareOutOrder(SEXPREC*, SEXPREC*, SEXPREC*)': getShareOutOrder.cpp:38: warning: format '%ld' expects type 'long int', but argument 3 has type 'Sint' g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c isSpouse.cpp -o isSpouse.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadEffects.cpp -o loadEffects.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadFamilyLogLikelihoods.cpp -o loadFamilyLogLikelihoods.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadInvExpSecDerRandom.cpp -o loadInvExpSecDerRandom.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadVMatrixFile.cpp -o loadVMatrixFile.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadVarSandwich.cpp -o loadVarSandwich.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c loadYBetaDiffFile.cpp -o loadYBetaDiffFile.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c makeBlockIdPair.cpp -o makeBlockIdPair.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c multic.cpp -o multic.o Calculate.h:12: warning: 'multic_para_file' defined but not used Calculate.h:13: warning: 'data_file' defined but not used Calculate.h:15: warning: 'share_file' defined but not used Calculate.h:16: warning: 'out_file' defined but not used Calculate.h:17: warning: 'mu_file' defined but not used Calculate.h:18: warning: 's_file' defined but not used Calculate.h:19: warning: 'm1_file' defined but not used Calculate.h:20: warning: 'm2_file' defined but not used Calculate.h:21: warning: 't_file' defined but not used Calculate.h:22: warning: 'sib_file' defined but not used Calculate.h:23: warning: 'pp_file' defined but not used Calculate.h:24: warning: 'po_file' defined but not used Calculate.h:25: warning: 'lik_file' defined but not used Calculate.h:26: warning: 'log_file' defined but not used Calculate.h:27: warning: 'lookuplog_file' defined but not used Calculate.h:28: warning: 'summary_file' defined but not used Calculate.h:29: warning: 'iteration_file' defined but not used g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c multicString.cpp -o multicString.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c solar2mloci.cpp -o solar2mloci.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c splitTempMloci.cpp -o splitTempMloci.o g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c sw2mloci.cpp -o sw2mloci.o d:\compiler\gcc\bin\../lib/gcc/mingw32/4.2.1-sjlj/../../../../include/io.h: In function 'void sw2lociFilesInternal(const char**, Sint*, const char**)': d:\compiler\gcc\bin\../lib/gcc/mingw32/4.2.1-sjlj/../../../../include/io.h:176: error: too many arguments to function 'int mkdir(const char*)' sw2mloci.cpp:124: error: at this point in file make[1]: *** [sw2mloci.o] Error 1 g++ -I"d:/Rcompile/recent/R/include" -O2 -Wall -c validateShareOut.cpp -o validateShareOut.o validateShareOut.cpp: In function 'void validateShareOut(Sint*, Sint*, char**, Sint*, char**, Sint*)': validateShareOut.cpp:22: warning: format '%ld' expects type 'long int', but argument 3 has type 'int' validateShareOut.cpp:28: warning: format '%ld' expects type 'long int', but argument 3 has type 'Sint' validateShareOut.cpp:28: warning: format '%ld' expects type 'long int', but argument 4 has type 'int' validateShareOut.cpp:34: warning: format '%ld' expects type 'long int', but argument 3 has type 'int' make[1]: Target `all' not remade because of errors. make[1]: Leaving directory `/cygdrive/d/Rcompile/CRANpkg/local/2.9/multic/src' ... done ERROR: compilation failed for package 'multic' * Removing 'd:/Rcompile/CRANpkg/lib/2.9/multic' * Restoring previous 'd:/Rcompile/CRANpkg/lib/2.9/multic'