* using log directory 'd:/Rcompile/CRANpkg/local/2.8/stepPlr.Rcheck' * using R version 2.8.1 beta (2008-12-12 r47183) * using session charset: ISO8859-1 * checking for file 'stepPlr/DESCRIPTION' ... OK * this is package 'stepPlr' version '0.91' * checking package name space information ... OK * checking package dependencies ... OK * checking if this is a source package ... OK * checking whether package 'stepPlr' can be installed ... OK * checking package directory ... OK * checking for portable file names ... OK * checking DESCRIPTION meta-information ... OK * checking top-level files ... OK * checking index information ... OK * checking package subdirectories ... OK * checking R files for non-ASCII characters ... OK * checking R files for syntax errors ... OK * checking whether the package can be loaded ... OK * checking whether the package can be loaded with stated dependencies ... OK * checking whether the name space can be loaded with stated dependencies ... OK * checking for unstated dependencies in R code ... OK * checking S3 generic/method consistency ... OK * checking replacement functions ... OK * checking foreign function calls ... OK * checking R code for possible problems ... OK * checking Rd files ... OK * checking Rd cross-references ... OK * checking for missing documentation entries ... OK * checking for code/documentation mismatches ... OK * checking Rd \usage sections ... OK * checking line endings in C/C++/Fortran sources/headers ... OK * checking line endings in Makefiles ... OK * checking for portable use of $BLAS_LIBS ... OK * creating stepPlr-Ex.R ... OK * checking examples ... ERROR Running examples in 'stepPlr-Ex.R' failed. The error most likely occurred in: > ### * cv.step.plr > > flush(stderr()); flush(stdout()) > > ### Name: cv.step.plr > ### Title: Computes cross-validated deviance or prediction errors for > ### step.plr > ### Aliases: cv.step.plr > ### Keywords: models regression > > ### ** Examples > > n <- 100 > p <- 5 > x <- matrix(sample(seq(3),n*p,replace=TRUE),nrow=n) > y <- sample(c(0,1),n,replace=TRUE) > level <- vector("list",length=p) > for (i in 1:p) level[[i]] <- seq(3) > cvfit1 <- cv.step.plr(x,y,level=level,lambda=c(1e-4,1e-2,1),cp="bic") *** forward addition *** x5 added df= 2.999931 score= 117.8231 x3 added df= 4.999846 score= 121.1096 x1 added df= 6.999756 score= 127.5945 x2 added df= 8.999662 score= 134.3927 x5 x3 added df= 12.99896 score= 140.6840 *** backward deletion *** x5 x3 deleted df= 8.999662 score= 134.3927 x2 deleted df= 6.999756 score= 127.5945 x1 deleted df= 4.999846 score= 121.1096 x3 deleted df= 2.999931 score= 117.8231 x5 deleted df= 1 score= 114.8352 *** forward addition *** x5 added df= 2.993156 score= 117.7935 x3 added df= 4.984667 score= 121.0433 x1 added df= 6.975783 score= 127.4897 x2 added df= 8.9664 score= 134.2473 x5 x3 added df= 12.89850 score= 140.2473 *** backward deletion *** x5 x3 deleted df= 8.9664 score= 134.2473 x2 deleted df= 6.975783 score= 127.4897 x1 deleted df= 4.984667 score= 121.0433 x3 deleted df= 2.993156 score= 117.7935 x5 deleted df= 1 score= 114.8352 *** forward addition *** x5 added df= 2.508282 score= 116.0509 x3 added df= 3.960439 score= 117.3763 x5 x3 added df= 5.991096 score= 119.3122 x2 added df= 7.381948 score= 122.7997 x3 x2 added df= 9.188368 score= 125.7508 *** backward deletion *** x3 x2 deleted df= 7.381948 score= 122.7997 x2 deleted df= 5.991096 score= 119.3122 x5 x3 deleted df= 3.960439 score= 117.3763 x3 deleted df= 2.508282 score= 116.0509 x5 deleted df= 1 score= 114.8352 CV fold 1 *** forward addition *** x3 added df= 2.999919 score= 114.5661 x1 added df= 4.999843 score= 119.6972 x2 added df= 6.999742 score= 125.4378 x3 x2 added df= 10.77163 score= 128.961 x5 added df= 12.77034 score= 136.1169 *** backward deletion *** x5 deleted df= 10.77163 score= 128.961 x1 deleted df= 8.771917 score= 122.7932 x3 x2 deleted df= 4.999838 score= 120.9765 x2 deleted df= 2.999919 score= 114.5661 x3 deleted df= 1 score= 113.4788 *** forward addition *** x3 added df= 2.99198 score= 114.5314 x1 added df= 4.984385 score= 119.6297 x2 added df= 6.974366 score= 125.3270 x3 x2 added df= 10.5513 score= 128.1839 x5 added df= 12.53452 score= 135.2716 *** backward deletion *** x5 deleted df= 10.5513 score= 128.1839 x1 deleted df= 8.565505 score= 122.0774 x3 x2 deleted df= 4.983914 score= 120.9069 x2 deleted df= 2.99198 score= 114.5314 x3 deleted df= 1 score= 113.4788 *** forward addition *** x3 added df= 2.468481 score= 112.7832 x2 x3 added df= 5.309377 score= 115.6502 x2 added df= 5.867383 score= 117.3046 x1 added df= 7.237771 score= 120.6122 x3 x1 added df= 9.056246 score= 124.7564 *** backward deletion *** x3 x1 deleted df= 7.237771 score= 120.6122 x1 deleted df= 5.867383 score= 117.3046 x2 x3 deleted df= 3.939127 score= 117.1286 x2 deleted df= 2.468481 score= 112.7832 x3 deleted df= 1 score= 113.4788 CV fold 2 *** forward addition *** x5 added df= 2.999934 score= 116.7101 x2 added df= 4.999852 score= 121.6404 x1 added df= 6.999757 score= 125.5874 x3 added df= 8.999653 score= 132.732 x5 x1 added df= 12.99898 score= 140.2813 *** backward deletion *** x5 x1 deleted df= 8.999653 score= 132.732 x3 deleted df= 6.999757 score= 125.5874 x1 deleted df= 4.999852 score= 121.6404 x2 deleted df= 2.999934 score= 116.7101 x5 deleted df= 1 score= 115.0855 *** forward addition *** x5 added df= 2.993397 score= 116.6815 x2 added df= 4.985293 score= 121.5768 x1 added df= 6.97587 score= 125.4831 x5 x1 added df= 10.91515 score= 132.5687 x4 added df= 12.89474 score= 139.6267 *** backward deletion *** x4 deleted df= 10.91515 score= 132.5687 x5 x1 deleted df= 6.97587 score= 125.4831 x1 deleted df= 4.985293 score= 121.5768 x2 deleted df= 2.993397 score= 116.6815 x5 deleted df= 1 score= 115.0855 *** forward addition *** x5 added df= 2.517828 score= 115.0246 x1 x5 added df= 5.53386 score= 117.8717 x1 added df= 6.106895 score= 119.6273 x2 added df= 7.474905 score= 121.7764 x3 added df= 8.817587 score= 126.5162 *** backward deletion *** x3 deleted df= 7.474905 score= 121.7764 x2 deleted df= 6.106895 score= 119.6273 x1 x5 deleted df= 4.003534 score= 118.3406 x1 deleted df= 2.517828 score= 115.0246 x5 deleted df= 1 score= 115.0855 CV fold 3 *** forward addition *** x5 added df= 2.999932 score= 115.936 x3 added df= 4.999849 score= 121.6132 x1 added df= 6.999768 score= 127.9967 x4 added df= 8.999673 score= 135.8446 x2 added df= 10.99955 score= 143.7635 *** backward deletion *** x2 deleted df= 8.999673 score= 135.8446 x4 deleted df= 6.999768 score= 127.9967 x1 deleted df= 4.999849 score= 121.6132 x3 deleted df= 2.999932 score= 115.936 x5 deleted df= 1 score= 113.4788 *** forward addition *** x5 added df= 2.993262 score= 115.9069 x3 added df= 4.985004 score= 121.5483 x1 added df= 6.976938 score= 127.8968 x4 added df= 8.967487 score= 135.7038 x2 added df= 10.95554 score= 143.5709 *** backward deletion *** x2 deleted df= 8.967487 score= 135.7038 x4 deleted df= 6.976938 score= 127.8968 x1 deleted df= 4.985004 score= 121.5483 x3 deleted df= 2.993262 score= 115.9069 x5 deleted df= 1 score= 113.4788 *** forward addition *** x5 added df= 2.510368 score= 114.1831 x3 added df= 3.964743 score= 117.6392 x1 added df= 5.423605 score= 121.7789 x2 x3 added df= 8.094332 score= 126.9488 x2 added df= 8.679524 score= 129.3296 *** backward deletion *** x1 deleted df= 7.330648 score= 125.0964 x5 deleted df= 5.984391 score= 122.8226 x2 x3 deleted df= 3.979336 score= 122.5053 x2 deleted df= 2.492981 score= 116.1615 x3 deleted df= 1 score= 113.4788 CV fold 4 *** forward addition *** x3 added df= 2.999922 score= 116.2175 x5 added df= 4.999842 score= 121.2104 x3 x5 added df= 8.714189 score= 126.9471 x2 x3 added df= 14.47894 score= 133.8267 x2 added df= 14.51287 score= 133.9750 *** backward deletion *** x3 x5 deleted df= 10.72497 score= 129.1127 x5 deleted df= 8.727697 score= 123.0723 x2 x3 deleted df= 4.999849 score= 124.5668 x2 deleted df= 2.999922 score= 116.2175 x3 deleted df= 1 score= 112.8229 *** forward addition *** x3 added df= 2.992204 score= 116.1838 x5 added df= 4.984312 score= 121.1425 x3 x5 added df= 8.504352 score= 126.1728 x2 x3 added df= 13.98883 score= 132.0570 x2 added df= 14.07581 score= 132.4227 *** backward deletion *** x3 x5 deleted df= 10.50706 score= 128.3178 x5 deleted df= 8.525915 score= 122.3505 x2 x3 deleted df= 4.984944 score= 124.5016 x2 deleted df= 2.992204 score= 116.1838 x3 deleted df= 1 score= 112.8229 *** forward addition *** x3 added df= 2.477002 score= 114.3654 x2 x3 added df= 5.34318 score= 116.4163 x2 added df= 5.935558 score= 118.9945 x5 x3 added df= 8.568087 score= 121.9529 x5 added df= 9.122191 score= 124.1695 *** backward deletion *** x5 x3 deleted df= 7.316865 score= 122.2257 x5 deleted df= 5.935558 score= 118.9945 x2 x3 deleted df= 3.96333 score= 120.4982 x2 deleted df= 2.477002 score= 114.3654 x3 deleted df= 1 score= 112.8229 CV fold 5 > x,y,lambda=1) Error: unexpected ',' in "x," Execution halted