- 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