- using R version 3.0.1 (2013-05-16)
- using platform: i686-pc-linux-gnu (32-bit)
- using session charset: UTF-8
- checking for file ‘rgenoud/DESCRIPTION’ ... OK
- this is package ‘rgenoud’ version ‘5.7-9’
- 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 for portable file names ... OK
- checking for sufficient/correct file permissions ... OK
- checking whether package ‘rgenoud’ can be installed ... OK
- checking installed package size ... OK
- checking package directory ... OK
- checking DESCRIPTION meta-information ... OK
- checking top-level files ... OK
- checking for left-over 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 ... OK
- checking R code for possible problems ... NOTE
genoud : fnLexicalSort: no visible binding for global variable ‘indx’
genoud: multiple local function definitions for ‘fn1.bfgs’ with
different formal arguments
genoud: multiple local function definitions for ‘gr1’ with different
formal arguments
genoud: multiple local function definitions for ‘hess.fn’ with
different formal arguments
genoud_transform : fnLexicalSort: no visible binding for global
variable ‘indx’
genoud_transform: multiple local function definitions for ‘fn1.bfgs’
with different formal arguments
genoud_transform: multiple local function definitions for ‘gr1’ with
different formal arguments
- 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 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 ... [11s/11s] OK
- checking for unstated dependencies in tests ... OK
- checking tests ... [14s/14s] OK
Running ‘tests.R’ [14s/14s]
Comparing ‘tests.Rout’ to ‘tests.Rout.save’ ...17c17
< Fri May 17 07:02:45 2013
---
> Mon May 6 16:18:17 2013
57c57
< #unique......... 601, #Total UniqueCount: 1601
---
> #unique......... 602, #Total UniqueCount: 1602
67c67
< #unique......... 675, #Total UniqueCount: 2276
---
> #unique......... 675, #Total UniqueCount: 2277
75,77c75,77
< mean............ 7.192134e-01
< variance........ 2.939320e-01
< #unique......... 433, #Total UniqueCount: 2709
---
> mean............ 6.992597e-01
> variance........ 3.225115e-01
> #unique......... 425, #Total UniqueCount: 2702
80,81c80,81
< mean............ 6.646066e+00
< variance........ 1.112275e+01
---
> mean............ 6.492986e+00
> variance........ 1.181980e+01
85,87c85,87
< mean............ 7.398103e-01
< variance........ 2.765773e-01
< #unique......... 403, #Total UniqueCount: 3112
---
> mean............ 7.026804e-01
> variance........ 3.202972e-01
> #unique......... 427, #Total UniqueCount: 3129
90,91c90,91
< mean............ 6.799621e+00
< variance........ 9.176910e+00
---
> mean............ 6.775381e+00
> variance........ 9.064497e+00
95,97c95,97
< mean............ 7.084161e-01
< variance........ 3.255063e-01
< #unique......... 423, #Total UniqueCount: 3535
---
> mean............ 7.172421e-01
> variance........ 2.944383e-01
> #unique......... 429, #Total UniqueCount: 3558
100,101c100,101
< mean............ 6.699452e+00
< variance........ 9.522744e+00
---
> mean............ 6.803949e+00
> variance........ 9.271285e+00
105,107c105,107
< mean............ 7.046358e-01
< variance........ 3.170584e-01
< #unique......... 419, #Total UniqueCount: 3954
---
> mean............ 7.416843e-01
> variance........ 2.822126e-01
> #unique......... 399, #Total UniqueCount: 3957
110,111c110,111
< mean............ 6.685075e+00
< variance........ 8.844676e+00
---
> mean............ 6.785987e+00
> variance........ 9.523546e+00
115,117c115,117
< mean............ 7.124794e-01
< variance........ 3.227363e-01
< #unique......... 407, #Total UniqueCount: 4361
---
> mean............ 7.064246e-01
> variance........ 3.249563e-01
> #unique......... 442, #Total UniqueCount: 4399
120,121c120,121
< mean............ 6.854623e+00
< variance........ 8.339294e+00
---
> mean............ 6.730697e+00
> variance........ 9.290300e+00
125,127c125,127
< mean............ 7.071254e-01
< variance........ 3.370268e-01
< #unique......... 416, #Total UniqueCount: 4777
---
> mean............ 7.328697e-01
> variance........ 3.001654e-01
> #unique......... 419, #Total UniqueCount: 4818
130,131c130,131
< mean............ 6.594404e+00
< variance........ 9.879157e+00
---
> mean............ 6.774830e+00
> variance........ 9.243335e+00
135,137c135,137
< mean............ 7.322606e-01
< variance........ 3.016941e-01
< #unique......... 419, #Total UniqueCount: 5196
---
> mean............ 7.324268e-01
> variance........ 2.825356e-01
> #unique......... 427, #Total UniqueCount: 5245
140,141c140,141
< mean............ 6.806864e+00
< variance........ 8.329487e+00
---
> mean............ 6.804995e+00
> variance........ 9.366768e+00
145,147c145,147
< mean............ 7.405344e-01
< variance........ 2.858165e-01
< #unique......... 387, #Total UniqueCount: 5583
---
> mean............ 7.128780e-01
> variance........ 3.125984e-01
> #unique......... 423, #Total UniqueCount: 5668
150,151c150,151
< mean............ 6.814066e+00
< variance........ 9.862640e+00
---
> mean............ 6.646871e+00
> variance........ 1.087588e+01
155,157c155,157
< mean............ 7.205220e-01
< variance........ 3.003950e-01
< #unique......... 431, #Total UniqueCount: 6014
---
> mean............ 7.410885e-01
> variance........ 2.871270e-01
> #unique......... 415, #Total UniqueCount: 6083
160,161c160,161
< mean............ 6.737584e+00
< variance........ 1.045828e+01
---
> mean............ 6.821422e+00
> variance........ 9.294157e+00
175,176c175,176
< Fri May 17 07:02:46 2013
< Total run time : 0 hours 0 minutes and 1 seconds
---
> Mon May 6 16:18:17 2013
> Total run time : 0 hours 0 minutes and 0 seconds
204c204
< Fri May 17 07:02:46 2013
---
> Mon May 6 16:18:17 2013
262,264c262,264
< mean............ -5.917496e-01
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< #unique......... 433, #Total UniqueCount: 2716
---
> mean............ -5.993518e-01
> variance........ 4.272421e-01
> #unique......... 437, #Total UniqueCount: 2720
267,268c267,268
< mean............ -6.184471e-01
< variance........ 1.110452e+01
---
> mean............ -5.189480e-01
> variance........ 1.110455e+01
272,274c272,274
< mean............ -6.192697e-01
< variance........ 4.336855e-01
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---
> mean............ -6.307907e-01
> variance........ 4.022376e-01
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277,278c277,278
< mean............ -1.181164e+00
< variance........ 6.865528e+00
---
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> variance........ 7.219784e+00
282,284c282,284
< mean............ -6.134084e-01
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---
> mean............ -6.514710e-01
> variance........ 3.963503e-01
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287,288c287,288
< mean............ -1.349272e+00
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---
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> variance........ 5.164821e+00
292,294c292,294
< mean............ -6.027948e-01
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---
> mean............ -6.589883e-01
> variance........ 3.692259e-01
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297,298c297,298
< mean............ -1.318078e+00
< variance........ 7.157138e+00
---
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> variance........ 6.135380e+00
302,304c302,304
< mean............ -6.337025e-01
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---
> mean............ -6.511009e-01
> variance........ 3.792198e-01
> #unique......... 415, #Total UniqueCount: 4354
307,308c307,308
< mean............ -1.344322e+00
< variance........ 6.565674e+00
---
> mean............ -1.395810e+00
> variance........ 5.781379e+00
312,314c312,314
< mean............ -6.415876e-01
< variance........ 3.952004e-01
< #unique......... 414, #Total UniqueCount: 4836
---
> mean............ -6.241771e-01
> variance........ 4.118249e-01
> #unique......... 423, #Total UniqueCount: 4777
317,318c317,318
< mean............ -1.351513e+00
< variance........ 6.029039e+00
---
> mean............ -1.330983e+00
> variance........ 5.817784e+00
322,324c322,324
< mean............ -6.580691e-01
< variance........ 3.820886e-01
< #unique......... 415, #Total UniqueCount: 5251
---
> mean............ -6.224895e-01
> variance........ 4.179222e-01
> #unique......... 433, #Total UniqueCount: 5210
327,328c327,328
< mean............ -1.383449e+00
< variance........ 6.360460e+00
---
> mean............ -1.420018e+00
> variance........ 6.023781e+00
332,334c332,334
< mean............ -6.408524e-01
< variance........ 4.032343e-01
< #unique......... 407, #Total UniqueCount: 5658
---
> mean............ -6.275665e-01
> variance........ 4.011626e-01
> #unique......... 439, #Total UniqueCount: 5649
337,338c337,338
< mean............ -1.271707e+00
< variance........ 6.201086e+00
---
> mean............ -1.313590e+00
> variance........ 7.240868e+00
342,344c342,344
< mean............ -7.044204e-01
< variance........ 3.241355e-01
< #unique......... 395, #Total UniqueCount: 6053
---
> mean............ -6.689601e-01
> variance........ 3.618035e-01
> #unique......... 401, #Total UniqueCount: 6050
347,348c347,348
< mean............ -1.459891e+00
< variance........ 5.440874e+00
---
> mean............ -1.301328e+00
> variance........ 5.655686e+00
362,363c362,363
< Fri May 17 07:02:47 2013
< Total run time : 0 hours 0 minutes and 1 seconds
---
> Mon May 6 16:18:19 2013
> Total run time : 0 hours 0 minutes and 2 seconds
398c398
< Fri May 17 07:02:47 2013
---
> Mon May 6 16:18:19 2013
438c438
< #unique......... 1829, #Total UniqueCount: 4829
---
> #unique......... 1830, #Total UniqueCount: 4830
448c448
< #unique......... 2073, #Total UniqueCount: 6902
---
> #unique......... 2076, #Total UniqueCount: 6906
456,458c456,458
< mean............ 2.844806e-01
< variance........ 2.938079e-02
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---
> mean............ 2.829078e-01
> variance........ 2.946363e-02
> #unique......... 1959, #Total UniqueCount: 8865
461,462c461,462
< mean............ 8.996621e-01
< variance........ 6.690726e+00
---
> mean............ 8.432716e-01
> variance........ 6.610512e+00
466,468c466,468
< mean............ 2.863615e-01
< variance........ 2.886291e-02
< #unique......... 1831, #Total UniqueCount: 10703
---
> mean............ 2.887597e-01
> variance........ 2.829153e-02
> #unique......... 1826, #Total UniqueCount: 10691
471,472c471,472
< mean............ 8.715955e-01
< variance........ 6.212467e+00
---
> mean............ 8.720794e-01
> variance........ 6.379687e+00
476,478c476,478
< mean............ 2.836658e-01
< variance........ 2.847235e-02
< #unique......... 1869, #Total UniqueCount: 12572
---
> mean............ 2.809638e-01
> variance........ 2.899667e-02
> #unique......... 1869, #Total UniqueCount: 12560
481,482c481,482
< mean............ 8.418615e-01
< variance........ 5.929163e+00
---
> mean............ 7.953450e-01
> variance........ 6.535011e+00
486,488c486,488
< mean............ 2.920593e-01
< variance........ 2.751341e-02
< #unique......... 1764, #Total UniqueCount: 14336
---
> mean............ 2.900779e-01
> variance........ 2.779293e-02
> #unique......... 1809, #Total UniqueCount: 14369
491,492c491,492
< mean............ 8.787056e-01
< variance........ 6.094116e+00
---
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> variance........ 6.218933e+00
496,498c496,498
< mean............ 2.869932e-01
< variance........ 2.786831e-02
< #unique......... 1843, #Total UniqueCount: 16179
---
> mean............ 2.867713e-01
> variance........ 2.798707e-02
> #unique......... 1822, #Total UniqueCount: 16191
501,502c501,502
< mean............ 8.027726e-01
< variance........ 6.161747e+00
---
> mean............ 8.433650e-01
> variance........ 6.468060e+00
506,508c506,508
< mean............ 2.829228e-01
< variance........ 2.838758e-02
< #unique......... 1752, #Total UniqueCount: 17931
---
> mean............ 2.788325e-01
> variance........ 2.920302e-02
> #unique......... 1839, #Total UniqueCount: 18030
511,512c511,512
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< variance........ 6.270747e+00
---
> mean............ 9.115030e-01
> variance........ 7.034378e+00
516,518c516,518
< mean............ 2.893818e-01
< variance........ 2.762937e-02
< #unique......... 1698, #Total UniqueCount: 19629
---
> mean............ 2.923154e-01
> variance........ 2.725670e-02
> #unique......... 1734, #Total UniqueCount: 19764
521,522c521,522
< mean............ 9.308437e-01
< variance........ 6.167841e+00
---
> mean............ 9.075195e-01
> variance........ 5.564484e+00
526,528c526,528
< mean............ 2.979574e-01
< variance........ 2.599564e-02
< #unique......... 1678, #Total UniqueCount: 21307
---
> mean............ 2.976346e-01
> variance........ 2.627850e-02
> #unique......... 1689, #Total UniqueCount: 21453
531,532c531,532
< mean............ 8.530843e-01
< variance........ 5.496162e+00
---
> mean............ 9.195252e-01
> variance........ 5.290259e+00
536,538c536,538
< mean............ 2.919520e-01
< variance........ 2.670980e-02
< #unique......... 1704, #Total UniqueCount: 23011
---
> mean............ 2.935872e-01
> variance........ 2.626317e-02
> #unique......... 1715, #Total UniqueCount: 23168
541,542c541,542
< mean............ 8.847569e-01
< variance........ 5.346823e+00
---
> mean............ 9.077440e-01
> variance........ 5.261826e+00
551c551
< X[ 1] : 9.995032e-01 G[ 1] : -1.277352e-06
---
> X[ 1] : 9.995032e-01 G[ 1] : -1.277157e-06
556c556
< Fri May 17 07:02:49 2013
---
> Mon May 6 16:18:21 2013
566c566
< [1] -1.277352e-06
---
> [1] -1.277157e-06
606c606
< Fri May 17 07:02:49 2013
---
> Mon May 6 16:18:22 2013
651c651
< #unique......... 3415, #Total UniqueCount: 8415
---
> #unique......... 3423, #Total UniqueCount: 8423
665c665
< #unique......... 3642, #Total UniqueCount: 12057
---
> #unique......... 3642, #Total UniqueCount: 12065
677,679c677,679
< mean............ 9.725100e-01
< variance........ 6.689541e-01
< #unique......... 3435, #Total UniqueCount: 15492
---
> mean............ 9.717519e-01
> variance........ 6.702611e-01
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682,683c682,683
< mean............ -8.860941e-01
< variance........ 1.600027e+01
---
> mean............ -8.944140e-01
> variance........ 1.712954e+01
686,687c686,687
< mean............ -9.389402e-01
< variance........ 1.640835e+01
---
> mean............ -9.114140e-01
> variance........ 1.580043e+01
691,693c691,693
< mean............ 9.722600e-01
< variance........ 6.712885e-01
< #unique......... 3654, #Total UniqueCount: 19146
---
> mean............ 9.710726e-01
> variance........ 6.714702e-01
> #unique......... 3666, #Total UniqueCount: 19259
696,697c696,697
< mean............ -8.844276e-01
< variance........ 1.688598e+01
---
> mean............ -8.568081e-01
> variance........ 1.781792e+01
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< mean............ -9.487637e-01
< variance........ 1.619109e+01
---
> mean............ -8.738692e-01
> variance........ 1.651816e+01
705,707c705,707
< mean............ 9.797362e-01
< variance........ 6.667582e-01
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---
> mean............ 9.831994e-01
> variance........ 6.645220e-01
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710,711c710,711
< mean............ -9.457684e-01
< variance........ 1.564439e+01
---
> mean............ -8.130327e-01
> variance........ 1.581470e+01
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< mean............ -8.083570e-01
< variance........ 1.482400e+01
---
> mean............ -8.257962e-01
> variance........ 1.511992e+01
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< mean............ 1.005045e+00
< variance........ 6.597496e-01
< #unique......... 3029, #Total UniqueCount: 25542
---
> mean............ 1.006698e+00
> variance........ 6.589228e-01
> #unique......... 3028, #Total UniqueCount: 25622
724,725c724,725
< mean............ -8.693982e-01
< variance........ 1.489794e+01
---
> mean............ -9.180558e-01
> variance........ 1.501658e+01
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< mean............ -9.491806e-01
< variance........ 1.490949e+01
---
> mean............ -9.148021e-01
> variance........ 1.460683e+01
733,735c733,735
< mean............ 9.820019e-01
< variance........ 6.662795e-01
< #unique......... 3067, #Total UniqueCount: 28609
---
> mean............ 9.784026e-01
> variance........ 6.673990e-01
> #unique......... 3074, #Total UniqueCount: 28696
738,739c738,739
< mean............ -8.441739e-01
< variance........ 1.389345e+01
---
> mean............ -8.205462e-01
> variance........ 1.433869e+01
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< mean............ -9.676801e-01
< variance........ 1.420053e+01
---
> mean............ -8.995069e-01
> variance........ 1.394996e+01
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< mean............ 9.868557e-01
< variance........ 6.647159e-01
< #unique......... 3053, #Total UniqueCount: 31662
---
> mean............ 9.946592e-01
> variance........ 6.622978e-01
> #unique......... 3043, #Total UniqueCount: 31739
752,753c752,753
< mean............ -9.967316e-01
< variance........ 1.416920e+01
---
> mean............ -1.021578e+00
> variance........ 1.349930e+01
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< mean............ -8.526988e-01
< variance........ 1.448960e+01
---
> mean............ -8.938267e-01
> variance........ 1.400179e+01
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< mean............ 9.821564e-01
< variance........ 6.659045e-01
< #unique......... 3051, #Total UniqueCount: 34713
---
> mean............ 9.786945e-01
> variance........ 6.687760e-01
> #unique......... 3047, #Total UniqueCount: 34786
766,767c766,767
< mean............ -7.515941e-01
< variance........ 1.387664e+01
---
> mean............ -8.278672e-01
> variance........ 1.394455e+01
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< mean............ -8.670992e-01
< variance........ 1.392893e+01
---
> mean............ -8.580631e-01
> variance........ 1.385920e+01
775,777c775,777
< mean............ 9.600815e-01
< variance........ 6.689138e-01
< #unique......... 3103, #Total UniqueCount: 37816
---
> mean............ 9.628559e-01
> variance........ 6.688166e-01
> #unique......... 3089, #Total UniqueCount: 37875
780,781c780,781
< mean............ -8.594838e-01
< variance........ 1.433527e+01
---
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> variance........ 1.411045e+01
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< mean............ -8.799650e-01
< variance........ 1.407850e+01
---
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> variance........ 1.501084e+01
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< mean............ 9.976856e-01
< variance........ 6.591895e-01
< #unique......... 3036, #Total UniqueCount: 40852
---
> mean............ 9.974602e-01
> variance........ 6.603539e-01
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794,795c794,795
< mean............ -9.202756e-01
< variance........ 1.281908e+01
---
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> variance........ 1.391434e+01
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< mean............ -9.212369e-01
< variance........ 1.234773e+01
---
> mean............ -9.396784e-01
> variance........ 1.187351e+01
803,805c803,805
< mean............ 9.874934e-01
< variance........ 6.614588e-01
< #unique......... 3031, #Total UniqueCount: 43883
---
> mean............ 9.897510e-01
> variance........ 6.617027e-01
> #unique......... 3029, #Total UniqueCount: 43924
808,809c808,809
< mean............ -9.689420e-01
< variance........ 1.162787e+01
---
> mean............ -9.661139e-01
> variance........ 1.160421e+01
812,813c812,813
< mean............ -9.077613e-01
< variance........ 1.277344e+01
---
> mean............ -8.569730e-01
> variance........ 1.241471e+01
822,823c822,823
< X[ 1] : -1.000000e+00 G[ 1] : -4.928638e-10
< X[ 2] : -1.000000e+00 G[ 2] : 7.203395e-10
---
> X[ 1] : -1.000000e+00 G[ 1] : 2.491051e-08
> X[ 2] : -1.000000e+00 G[ 2] : -3.427565e-08
828,829c828,829
< Fri May 17 07:02:58 2013
< Total run time : 0 hours 0 minutes and 9 seconds
---
> Mon May 6 16:18:30 2013
> Total run time : 0 hours 0 minutes and 8 seconds
838c838
< [1] -4.928638e-10 7.203395e-10
---
> [1] 2.491051e-08 -3.427565e-08
- checking for unstated dependencies in vignettes ... OK
- checking package vignettes in ‘inst/doc’ ... OK
- checking running R code from vignettes ... [3s/3s] OK
- checking re-building of vignette PDFs ... [3s/3s] OK
- checking PDF version of manual ... OK
NOTE: There was 1 note.
See
‘/home/hornik/tmp/R.check/r-release/Work/PKGS/rgenoud.Rcheck/00check.log’
for details.