- using R Under development (unstable) (2012-08-14 r60253)
- using platform: x86_64-unknown-linux-gnu (64-bit)
- using session charset: UTF-8
- checking for file ‘ipred/DESCRIPTION’ ... OK
- this is package ‘ipred’ version ‘0.8-13’
- checking package namespace information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... OK
- checking if there is a namespace ... OK
- checking for executable files ... OK
- checking for hidden files and directories ... OK
- checking whether package ‘ipred’ can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking for portable file names ... OK
- checking for sufficient/correct file permissions ... 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 package can be unloaded cleanly ... OK
- checking whether the namespace can be loaded with stated dependencies ... OK
- checking whether the namespace can be unloaded cleanly ... OK
- checking loading without being on the library search path ... OK
- checking for unstated dependencies in R code ... OK
- checking S3 generic/method consistency ... OK
- checking replacement functions ... OK
- checking foreign function calls ... NOTE
Foreign function call(s) with ‘PACKAGE’ argument in different package:
.C("s_to_rp", ..., PACKAGE = "rpart")
.C("s_to_rp2", ..., PACKAGE = "rpart")
See the chapter ‘System and foreign language interfaces’ of the
‘Writing R Extensions’ manual.
- checking R code for possible problems ... OK
- checking Rd files ... OK
- checking Rd metadata ... OK
- checking Rd cross-references ... OK
- checking for missing documentation entries ... OK
- checking for code/documentation mismatches ... OK
- checking Rd \usage sections ... OK
- checking Rd contents ... OK
- checking for unstated dependencies in examples ... OK
- checking contents of ‘data’ directory ... OK
- checking data for non-ASCII characters ... OK
- checking data for ASCII and uncompressed saves ... OK
- checking line endings in C/C++/Fortran sources/headers ... OK
- checking line endings in Makefiles ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking compiled code ... OK
- checking sizes of PDF files under ‘inst/doc’ ... OK
- checking installed files from ‘inst/doc’ ... OK
- checking examples ... OK
- checking for unstated dependencies in tests ... OK
- checking tests ... [22s/22s] OK
Running ‘ipred-bugs.R’
Comparing ‘ipred-bugs.Rout’ to ‘ipred-bugs.Rout.save’ ...167c167
< [1] 0.949367
---
> [1] 0.9612632
169c169
< [1] 0.9148273
---
> [1] 0.9073771
Running ‘ipred-segfault.R’
Comparing ‘ipred-segfault.Rout’ to ‘ipred-segfault.Rout.save’ ...31c31
< Out-of-bag estimate of misclassification error: 0.195
---
> Out-of-bag estimate of misclassification error: 0.185
34c34
< [1] 1 1 1 2 2 2 1 1 1 1
---
> [1] 1 1 1 1 2 2 1 1 1 1
52c52
< [1] 1 1 1 1 1 2 1 2 1 2
---
> [1] 1 1 1 1 2 2 1 2 1 2
58c58
< [1] 1 1 1 1 2 2 1 2 1 2
---
> [1] 1 1 1 1 1 2 1 2 1 2
69c69
< [8,] 0.1 0.9
---
> [8,] 0.0 1.0
81c81
< [8,] 0.1 0.9
---
> [8,] 0.0 1.0
86,95c86,95
< [1,] 1.000000000 0.000000000
< [2,] 0.996441281 0.003558719
< [3,] 1.000000000 0.000000000
< [4,] 1.000000000 0.000000000
< [5,] 0.484359233 0.515640767
< [6,] 0.000000000 1.000000000
< [7,] 1.000000000 0.000000000
< [8,] 0.001138952 0.998861048
< [9,] 1.000000000 0.000000000
< [10,] 0.000000000 1.000000000
---
> [1,] 1.0000000 0.000000000
> [2,] 0.9976303 0.002369668
> [3,] 1.0000000 0.000000000
> [4,] 1.0000000 0.000000000
> [5,] 0.5311111 0.468888889
> [6,] 0.0000000 1.000000000
> [7,] 1.0000000 0.000000000
> [8,] 0.0000000 1.000000000
> [9,] 1.0000000 0.000000000
> [10,] 0.0000000 1.000000000
108c108
< Misclassification error: 0.035
---
> Misclassification error: 0.04
149c149
< Misclassification error: 0.11
---
> Misclassification error: 0.095
160c160
< Misclassification error: 0.07
---
> Misclassification error: 0.085
172,173c172,173
< Misclassification error: 0.0388
< Standard deviation: 0.0029
---
> Misclassification error: 0.0391
> Standard deviation: 0.0027
185c185
< Misclassification error: 0.0332
---
> Misclassification error: 0.0333
203c203
< Out-of-bag estimate of root mean squared error: 3.5077
---
> Out-of-bag estimate of root mean squared error: 3.5394
206,207c206,207
< [1] 11.89640 13.53735 10.67191 11.90026 13.67112 10.47250 15.93565 15.76868
< [9] 17.64140 17.54231
---
> [1] 17.52261 10.07663 12.96417 13.86483 14.07599 16.60311 NA 21.18277
> [9] 16.92367 NA
210,211c210,211
< [1] 21.13210 17.05773 14.36727 13.23833 11.40763 12.36486 19.00303 14.98115
< [9] 19.09551 17.23454
---
> [1] 17.988182 11.996216 19.349240 16.608268 11.051775 15.140120 10.996003
> [8] 9.471202 14.869813 13.846185
213,214c213,214
< [1] 21.13210 17.05773 14.36727 13.23833 11.40763 12.36486 19.00303 14.98115
< [9] 19.09551 17.23454
---
> [1] 17.988182 11.996216 19.349240 16.608268 11.051775 15.140120 10.996003
> [8] 9.471202 14.869813 13.846185
216,217c216,217
< [1] 21.27480 16.62497 14.46233 13.44548 11.68707 12.79660 19.37107 15.25045
< [9] 19.05139 18.08567
---
> [1] 18.163683 12.034196 19.291462 16.861436 11.071367 15.258870 11.600688
> [8] 9.460784 14.971003 13.922154
225c225
< Root mean squared error: 2.5998
---
> Root mean squared error: 2.6627
236c236
< Root mean squared error: 2.6421
---
> Root mean squared error: 2.5703
264c264
< Root mean squared error: 2.6975
---
> Root mean squared error: 2.6721
286c286
< 154.0000 154.0000 154.0000 154.0000 0.0858 0.0769 0.1111
---
> 183.0000 183.0000 183.0000 183.0000 0.0421 0.0342 0.0475
292c292
< 146.0000 146.0000 146.0000 146.0000 0.0673 0.0544 0.1145
---
> 130.000 130.000 130.000 130.000 0.501 0.489 0.532
298c298
< 122.000 122.000 122.000 122.000 0.306 0.274 0.377
---
> 160.0000 160.0000 160.0000 160.0000 0.0428 0.0359 0.0568
304c304
< 119.0000 119.0000 119.0000 119.0000 0.0986 0.0807 0.1145
---
> 152.0000 152.0000 152.0000 152.0000 0.0475 0.0378 0.0514
310c310
< 150.0000 150.0000 150.0000 150.0000 0.0242 0.0169 0.0411
---
> 130.000 130.000 130.000 130.000 0.489 0.399 0.532
316c316
< 136.0000 136.0000 136.0000 136.0000 0.0412 0.0342 0.0522
---
> 149.0000 149.0000 149.0000 149.0000 0.0302 0.0172 0.0342
322c322
< 122.000 122.000 122.000 122.000 0.306 0.274 0.377
---
> 141.000 141.000 141.000 141.000 0.489 0.398 0.532
328c328
< 149.0000 149.0000 149.0000 149.0000 0.0552 0.0544 0.0691
---
> 160.0000 160.0000 160.0000 160.0000 0.0315 0.0187 0.0359
334c334
< 123.000 123.000 123.000 123.000 0.366 0.317 0.399
---
> 169.000 169.000 169.000 169.000 0.175 0.137 0.209
340c340
< 163.0000 163.0000 163.0000 163.0000 0.0522 0.0444 0.0552
---
> 132.0000 132.0000 132.0000 132.0000 0.1050 0.0718 0.1191
358c358
< Brier's score: 0.076
---
> Brier's score: 0.0955
371c371
< Brier's score: 0.0898
---
> Brier's score: 0.069
405,406c405,406
< [1] 19.884659 7.979953 15.136274 17.090984 10.593808 15.343204 17.641397
< [8] 12.360645 14.277689 10.893690
---
> [1] 6.440993 14.435812 10.847327 14.837533 13.010493 6.156936 20.132612
> [8] 6.879375 14.076470 16.636056
Running ‘ipred-smalltest.R’
Comparing ‘ipred-smalltest.Rout’ to ‘ipred-smalltest.Rout.save’ ... OK
Running ‘ipred-tests.R’ [13s/14s]
Comparing ‘ipred-tests.Rout’ to ‘ipred-tests.Rout.save’ ...741c741
< Out-of-bag estimate of misclassification error: 0.0366
---
> Out-of-bag estimate of misclassification error: 0.0381
749c749
< Out-of-bag estimate of root mean squared error: 3.9905
---
> Out-of-bag estimate of root mean squared error: 3.9809
756c756
< Out-of-bag estimate of root mean squared error: 2.8515
---
> Out-of-bag estimate of root mean squared error: 2.8832
765c765
< Out-of-bag estimate of Brier's score: 0.1969
---
> Out-of-bag estimate of Brier's score: 0.1927
773c773
< Out-of-bag estimate of misclassification error: 0.3551
---
> Out-of-bag estimate of misclassification error: 0.3271
777,779d776
< > proc.time()
< user system elapsed
< 13.331 0.126 13.567
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... OK
- checking re-building of vignette PDFs ... OK
- checking PDF version of manual ... OK
NOTE: There was 1 note.
See
‘/data/blackswan/ripley/R/packages/tests-devel/ipred.Rcheck/00check.log’
for details.