- using R version 2.13.1 Patched (2011-07-22 r56481)
- using platform: i386-apple-darwin9.8.0 (32-bit)
- using session charset: ASCII
- checking for file 'earth/DESCRIPTION' ... OK
- this is package 'earth' version '3.2-1'
- checking package name space information ... OK
- checking package dependencies ... OK
- checking if this is a source package ... 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
- loading checks for arch 'i386'
** 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space can be unloaded cleanly ... OK
- loading checks for arch 'x86_64'
** 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 name space can be loaded with stated dependencies ... OK
** checking whether the name space 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 ... 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 compilation flags in Makevars ... OK
- checking for portable use of $(BLAS_LIBS) and $(LAPACK_LIBS) ... OK
- checking sizes of PDF files under inst/doc ... NOTE
'qpdf' made some significant size reductions:
compacted 'earth-notes.pdf' from 1116Kb to 653Kb
consider running tools::compactPDF() on these files
- checking examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x86_64' ... OK
- checking for unstated dependencies in tests ... OK
- checking tests ...
** running tests for arch 'i386' OK
Running 'test.earth.R'
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
** running tests for arch 'x86_64' OK
Running 'test.earth.R'
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 ... OK
- checking re-building of vignettes ... OK
- checking PDF version of manual ... OK
- elapsed time (check, wall clock): 0:50