• using R Under development (unstable) (2012-02-06 r58287)
• using platform: i686-pc-linux-gnu (32-bit)
• using session charset: UTF-8
• checking for file ‘earth/DESCRIPTION’ ... OK
• this is package ‘earth’ version ‘3.2-1’
• 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 whether package ‘earth’ 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 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 metadata ... OK
• checking Rd cross-references ... OK
• checking for missing documentation entries ... OK
• checking for code/documentation mismatches ... OK
• checking Rd \usage sections ... NOTE
  S3 methods shown with full name in documentation object 'plot.earth.models':
  ‘plot.earth.models’
  
  The \usage entries for S3 methods should use the \method markup and not
  their full name.
  See the chapter ‘Writing R documentation files’ in the ‘Writing R
  Extensions’ manual.
• 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 compilation flags in Makevars ... OK
• checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
• checking compiled code ... NOTE
  File ‘/home/hornik/tmp/R.check/r-devel/Work/build/Packages/earth/libs/earth.so’:
  Found ‘stdout’, possibly from ‘stdout’ (C)
  
  Compiled code should not call functions which might terminate R nor
  write to stdout/stderr instead of to the console. The detected symbols
  are linked into the code but might come from libraries and not actually
  be called.
  
  See ‘Writing portable packages’ in the ‘Writing R Extensions’ manual.
• checking sizes of PDF files under ‘inst/doc’ ... OK
• checking installed files from ‘inst/doc’ ... NOTE
  The following directories should probably not be installed:
  ‘figs’
  
  Consider the use of a .Rinstignore file: see ‘Writing R Extensions’,
  or move the vignette sources from ‘inst/doc’ to ‘vignettes’.
• checking examples ... [1s/1s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [1s/1s] OK
  Running ‘test.earth.R’ [0s/1s]
  Comparing ‘test.earth.Rout’ to ‘test.earth.Rout.save’ ...38,44c38,44
  < 8 0.7299 0.7618 0.02498 3 humidity 52 8 9 2
  < 10 0.7543 0.7902 0.02842 6 dpg 54 10 11 2
  < 12 0.7591 0.8011 0.01088 8 vis 200 12 13
  < 14 0.7634 0.8111 0.01001 2 wind 7 14 15 5
  < 16 0.7647 0.8184 0.007332 1 vh 5900 16 17
  < 18 0.7679 0.8271 0.00865 4 temp 71 18 19 6
  < 20 0.7715 0.8357 0.008599 6 dpg 13 20 21
  ---
  > 8 0.7300 0.7618 0.025 3 humidity 56 8 9 2
  > 10 0.7546 0.7904 0.02865 6 dpg 54 10 11 2
  > 12 0.7597 0.8015 0.0111 8 vis 200 12 13
  > 14 0.7633 0.8110 0.009428 2 wind 7 14 15 13
  > 16 0.7637 0.8177 0.006729 6 dpg 44 16 17 5
  > 18 0.7678 0.8270 0.009305 7 ibt 233 18 19
  > 20 0.7659 0.8317 0.004672 9 doy 159 20 21 2
  47c47
  < After forward pass GRSq 0.7715 RSq 0.8357
  ---
  > After forward pass GRSq 0.7659 RSq 0.8317
  54,71c54,71
  < 4 0.6904 0.7043 -0.0005 2 1 2 3 4
  < 5 0.7098 0.7272 0.0194 3 1 2 4 6 7
  < 6 0.7277 0.7480 0.0179 4 1 2 4 6 7 8
  < 7 0.7388 0.7621 0.0111 5 1 2 6 7 9 13 20
  < 8 0.7608 0.7855 0.0220 6 1 2 6 7 9 13 17 20
  < 9 0.7703 0.7974 0.0096 6 1 2 6 7 9 13 17 20 21
  < 10 0.7765 0.8061 0.0062 8 1 2 6 7 9 13 14 17 20 21
  < 11 0.7793 0.8115 0.0027 8 1 2 6 7 9 13 14 17 18 20 21
  < 12 0.7832 0.8180 0.0040 8 1 2 6 7 9 10 13 14 17 18 20 21
  < 13 0.7871 0.8242 0.0039 8 1 2 6 7 9 10 13 14 16 17 18 20 21
  < 14 0.7891 0.8287 0.0020 8 1 2 4 6 7 9 10 13 14 16 17 18 20 21
  < chosen 15 0.7891 0.8316 0.0000 8 1 2 4 6 7 8 9 10 13 14 16 17 18 20 21
  < 16 0.7873 0.8330 -0.0018 8 1 2 4 6 7 8 9 10 13 14 15 16 17 18 20 21
  < 17 0.7859 0.8348 -0.0014 8 1 2 4 6 7 8 9 10 11 13 14 15 16 17 18 20 21
  < 18 0.7827 0.8352 -0.0031 8 1 2 4 6 7 8 9 10 11 13 14 15 16 17 18 19 20 21
  < 19 0.7793 0.8356 -0.0034 8 1 2 4 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21
  < 20 0.7755 0.8356 -0.0039 8 1 2 3 4 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21
  < 21 0.7715 0.8357 -0.0040 8 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21
  ---
  > 4 0.7018 0.7153 0.0109 3 1 2 9 19
  > 5 0.7108 0.7281 0.0090 4 1 2 6 9 19
  > 6 0.7377 0.7573 0.0269 4 1 2 6 7 9 19
  > 7 0.7566 0.7783 0.0189 5 1 2 6 7 9 11 19
  > 8 0.7657 0.7900 0.0091 6 1 2 6 7 9 11 13 19
  > 9 0.7768 0.8031 0.0111 7 1 2 6 7 9 11 13 17 19
  > 10 0.7851 0.8135 0.0082 7 1 2 6 7 9 10 11 13 17 19
  > chosen 11 0.7910 0.8216 0.0059 8 1 2 6 7 9 10 11 13 14 17 19
  > 12 0.7897 0.8234 -0.0013 8 1 2 6 7 9 10 11 13 14 17 19 20
  > 13 0.7895 0.8261 -0.0002 8 1 2 6 7 9 10 11 13 14 17 19 20 21
  > 14 0.7872 0.8272 -0.0023 8 1 2 5 6 7 9 10 11 13 14 17 19 20 21
  > 15 0.7854 0.8286 -0.0018 8 1 2 5 6 7 9 10 11 13 14 16 17 19 20 21
  > 16 0.7833 0.8298 -0.0021 8 1 2 5 6 7 9 10 11 13 14 15 16 17 19 20 21
  > 17 0.7804 0.8306 -0.0028 8 1 2 5 6 7 8 9 10 11 13 14 15 16 17 19 20 21
  > 18 0.7772 0.8310 -0.0032 8 1 2 4 5 6 7 8 9 10 11 13 14 15 16 17 19 20 21
  > 19 0.7738 0.8314 -0.0034 8 1 2 3 4 5 6 7 8 9 10 11 13 14 15 16 17 19 20 21
  > 20 0.7700 0.8316 -0.0038 8 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 19 20 21
  > 21 0.7659 0.8317 -0.0040 8 1 2 3 4 5 6 7 8 9 10 11 12 13 14 15 16 17 18 19 20 21
  73,74c73,74
  < Prune method "backward" penalty 3 nprune 21: selected 15 of 21 terms, and 8 of 9 predictors
  < After backward pass GRSq 0.7891 RSq 0.8316
  ---
  > Prune method "backward" penalty 3 nprune 21: selected 11 of 21 terms, and 8 of 9 predictors
  > After backward pass GRSq 0.791 RSq 0.8216
  76,79c76,79
  < Selected 15 of 21 terms, and 8 of 9 predictors
  < Importance: temp, doy, ibh, humidity, dpg, vis, vh, wind, ibt-unused
  < Number of terms at each degree of interaction: 1 9 5
  < GCV 13.6 RSS 3556 GRSq 0.789 RSq 0.832
  ---
  > Selected 11 of 21 terms, and 8 of 9 predictors
  > Importance: temp, humidity, ibt, doy, dpg, ibh, vis, wind, vh-unused
  > Number of terms at each degree of interaction: 1 5 5
  > GCV 13.5 RSS 3768 GRSq 0.791 RSq 0.822
  84,91c84,87
  < (Intercept) 15.175
  < h(vh-5900) 0.192
  < h(5900-vh) -0.017
  < h(temp-58) 0.547
  < h(ibh-1069) 0.000
  < h(dpg-13) -0.068
  < h(13-dpg) -0.042
  < h(200-vis) 0.018
  ---
  > (Intercept) 14.889
  > h(temp-58) 0.321
  > h(233-ibt) -0.046
  > h(200-vis) 0.022
  93,103c89,99
  < h(89-doy) -0.150
  < h(wind-7) * h(1069-ibh) -0.018
  < h(humidity-52) * h(temp-58) 0.005
  < h(52-humidity) * h(temp-58) -0.018
  < h(temp-58) * h(dpg-54) -0.015
  < h(temp-71) * h(doy-89) -0.003
  <
  < Selected 15 of 21 terms, and 8 of 9 predictors
  < Importance: temp, doy, ibh, humidity, dpg, vis, vh, wind, ibt-unused
  < Number of terms at each degree of interaction: 1 9 5
  < GCV 13.6 RSS 3556 GRSq 0.789 RSq 0.832
  ---
  > h(89-doy) -0.144
  > h(wind-7) * h(200-vis) -0.019
  > h(56-humidity) * h(temp-58) -0.021
  > h(temp-58) * h(dpg-54) -0.019
  > h(temp-58) * h(54-dpg) 0.004
  > h(1069-ibh) * h(44-dpg) 0.000
  >
  > Selected 11 of 21 terms, and 8 of 9 predictors
  > Importance: temp, humidity, ibt, doy, dpg, ibh, vis, wind, vh-unused
  > Number of terms at each degree of interaction: 1 5 5
  > GCV 13.5 RSS 3768 GRSq 0.791 RSq 0.822
  106,114c102,110
  < temp 14 100.0 100.0
  < doy 11 35.4 39.1
  < ibh 10 36.6> 40.4>
  < humidity 10 31.7 35.4
  < dpg 9 27.9 31.7
  < vis 9 27.9 31.7
  < vh 8 25.2 28.9
  < wind 6 15.4 20.3
  < ibt-unused 0 0.0 0.0
  ---
  > temp 10 100.0 100.0
  > humidity 8 35.6 38.4
  > ibt 8 35.6 38.4
  > doy 7 33.6 36.0
  > dpg 5 25.9 28.0
  > ibh 4 30.9> 32.3>
  > vis 4 20.8 22.9
  > wind 1 8.7 9.9
  > vh-unused 0 0.0 0.0
  117,120c113,116
  < Selected 5 of 21 terms, and 3 of 9 predictors
  < Importance: temp, ibh, doy, vh-unused, wind-unused, humidity-unused, ...
  < Number of terms at each degree of interaction: 1 4 (additive model)
  < GCV 18.7 RSS 5761 GRSq 0.71 RSq 0.727
  ---
  > Selected 5 of 21 terms, and 4 of 9 predictors
  > Importance: temp, humidity, ibt, ibh-unused, doy, vh-unused, wind-unused, ...
  > Number of terms at each degree of interaction: 1 3 1
  > GCV 18.6 RSS 5741 GRSq 0.711 RSq 0.728
  123,124c119,120
  < 0 1
  < 1 4
  ---
  > 0 1 2
  > 1 3 1
  130c126
  < [1] 5761
  ---
  > [1] 5741
  132c128
  < [1] 1 2 3 4 5
  ---
  > [1] 1 2 5 3 4
  135c131
  < [1,] 2.9
  ---
  > [1,] 6.63
• checking for unstated dependencies in vignettes ... OK
• checking package vignettes in ‘inst/doc’ ... OK
• checking running R code from vignettes ... [1s/1s] OK
• checking re-building of vignette PDFs ... [2s/3s] OK
• checking PDF version of manual ... OK
  NOTE: There were 3 notes.
  See
  ‘/home/hornik/tmp/R.check/r-devel/Work/PKGS/earth.Rcheck/00check.log’
  for details.