* using log directory 'd:/Rcompile/CRANpkg/local/3.0/multcomp.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* checking for file 'multcomp/DESCRIPTION' ... OK
* this is package 'multcomp' version '1.4-0'
* 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 hidden files and directories ... OK
* checking for portable file names ... OK
* checking whether package 'multcomp' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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 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 sizes of PDF files under 'inst/doc' ... OK
* checking installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ... OK
* checking differences from 'multcomp-Ex.Rout' to 'multcomp-Ex.Rout.save' ...
283,284c283,284
< Warning in Ops.factor(1, center) : | not meaningful for factors
< Warning in Ops.factor(1, center) : | not meaningful for factors
---
> Warning in Ops.factor(1, center) : '|' not meaningful for factors
> Warning in Ops.factor(1, center) : '|' not meaningful for factors
293c293,294
< detaching 'package:coxme', 'package:bdsmatrix'
---
> detaching 'package:coxme', 'package:Matrix', 'package:nlme',
>   'package:bdsmatrix'
446c447
< Quantile = 3.0632
---
> Quantile = 3.0638
452,461c453,462
< B - A == 0  -2.1333  -4.7921   0.5254
< C - A == 0   3.6000   0.9413   6.2587
< D - A == 0   2.2000  -0.4587   4.8587
< E - A == 0  -4.3333  -6.9921  -1.6746
< C - B == 0   5.7333   3.0746   8.3921
< D - B == 0   4.3333   1.6746   6.9921
< E - B == 0  -2.2000  -4.8587   0.4587
< D - C == 0  -1.4000  -4.0587   1.2587
< E - C == 0  -7.9333 -10.5921  -5.2746
< E - D == 0  -6.5333  -9.1921  -3.8746
---
> B - A == 0  -2.1333  -4.7925   0.5259
> C - A == 0   3.6000   0.9408   6.2592
> D - A == 0   2.2000  -0.4592   4.8592
> E - A == 0  -4.3333  -6.9925  -1.6741
> C - B == 0   5.7333   3.0741   8.3925
> D - B == 0   4.3333   1.6741   6.9925
> E - B == 0  -2.2000  -4.8592   0.4592
> D - C == 0  -1.4000  -4.0592   1.2592
> E - C == 0  -7.9333 -10.5925  -5.2741
> E - D == 0  -6.5333  -9.1925  -3.8741
506c507
< D - B == 0   4.3333     0.8679   4.993 0.000398 ***
---
> D - B == 0   4.3333     0.8679   4.993 0.000531 ***
526,528c527,529
< B - A == 0  -2.1333     0.8679  -2.458   0.0500 .  
< C - A == 0   3.6000     0.8679   4.148   0.0028 ** 
< D - A == 0   2.2000     0.8679   2.535   0.0430 *  
---
> B - A == 0  -2.1333     0.8679  -2.458  0.05002 .  
> C - A == 0   3.6000     0.8679   4.148  0.00275 ** 
> D - A == 0   2.2000     0.8679   2.535  0.04297 *  
532,533c533,534
< E - B == 0  -2.2000     0.8679  -2.535   0.0430 *  
< D - C == 0  -1.4000     0.8679  -1.613   0.1263    
---
> E - B == 0  -2.2000     0.8679  -2.535  0.04297 *  
> D - C == 0  -1.4000     0.8679  -1.613  0.12629    
586c587
< PE4 - PE3 == 0 -0.012820 -0.114108  0.088469
---
> PE4 - PE3 == 0 -0.012820 -0.114108  0.088468
597c598
< PE9 - PE5 == 0  0.159934  0.098797  0.221072
---
> PE9 - PE5 == 0  0.159934  0.098797  0.221071
922a924,925
> Warning in RET$pfunction("adjusted", ...) :
>   Completion with error > abseps
939,940c942,943
< otrend >= 0     -3.4821     2.0867  -1.669 0.2182  
< atrend >= 0   -314.7324   408.9901  -0.770 0.6621  
---
> otrend >= 0     -3.4821     2.0867  -1.669 0.2185  
> atrend >= 0   -314.7324   408.9901  -0.770 0.6625  
1165c1168
< Quantile = -2.2706
---
> Quantile = -2.2714
1171,1176c1174,1179
< Thromb: B - S <= 0  0.12170 -0.07627      Inf
< Thromb: H - S <= 0  0.04351 -0.17934      Inf
< ADP: B - S <= 0     0.21211  0.03808      Inf
< ADP: H - S <= 0     0.08422 -0.06902      Inf
< TRAP: B - S <= 0    0.10525 -0.20334      Inf
< TRAP: H - S <= 0    0.07109 -0.24473      Inf
---
> Thromb: B - S <= 0  0.12170 -0.07633      Inf
> Thromb: H - S <= 0  0.04351 -0.17941      Inf
> ADP: B - S <= 0     0.21211  0.03802      Inf
> ADP: H - S <= 0     0.08422 -0.06907      Inf
> TRAP: B - S <= 0    0.10525 -0.20344      Inf
> TRAP: H - S <= 0    0.07109 -0.24483      Inf
1338,1341c1341,1344
< head: grouptrt == 0 -0.13837 -0.63078  0.35404
< mala: grouptrt == 0  0.41140 -0.21669  1.03949
< pyre: grouptrt == 0 -1.15795 -2.26188 -0.05402
< arth: grouptrt == 0 -0.13371 -1.03980  0.77238
---
> head: grouptrt == 0 -0.13837 -0.63078  0.35403
> mala: grouptrt == 0  0.41140 -0.21669  1.03948
> pyre: grouptrt == 0 -1.15795 -2.26187 -0.05404
> arth: grouptrt == 0 -0.13371 -1.03979  0.77237
1416c1419
< m2: groupB == 0 -2.480e-17  4.013e-01   0.000    1.000
---
> m2: groupB == 0 9.356e-16  4.013e-01   0.000    1.000
1495,1497c1498,1500
< V2 - V1 >= 0 -2.13330     -Inf  0.82293
< V3 - V1 >= 0 -7.46670     -Inf -4.51047
< V4 - V1 >= 0 -1.66670     -Inf -0.03581
---
> V2 - V1 >= 0 -2.13330     -Inf  0.82288
> V3 - V1 >= 0 -7.46670     -Inf -4.51052
> V4 - V1 >= 0 -1.66670     -Inf -0.03584
1648,1650c1651,1653
< b1 - b0 >= 0 -2.13333     -Inf  0.82290
< b2 - b0 >= 0 -7.46667     -Inf -4.51043
< b3 - b0 >= 0 -1.66667     -Inf -0.03578
---
> b1 - b0 >= 0 -2.13333     -Inf  0.82285
> b2 - b0 >= 0 -7.46667     -Inf -4.51048
> b3 - b0 >= 0 -1.66667     -Inf -0.03581
1666c1669
< Quantile = 1.8431
---
> Quantile = 1.8429
1672,1674c1675,1677
< b1 - b0 >= 0 -2.13333     -Inf  0.82257
< b2 - b0 >= 0 -7.46667     -Inf -4.51076
< b3 - b0 >= 0 -1.66667     -Inf -0.03596
---
> b1 - b0 >= 0 -2.13333     -Inf  0.82222
> b2 - b0 >= 0 -7.46667     -Inf -4.51112
> b3 - b0 >= 0 -1.66667     -Inf -0.03616
Warning message:
running command 'diff -bw "D:\temp\RtmpUlp44Q\Rdiffa2c14227355f0" "D:\temp\RtmpUlp44Q\Rdiffb2c1448813db4"' had status 1 
 OK
* checking for unstated dependencies in tests ... OK
* checking tests ... OK
  Running 'bugfix.R'
  Comparing 'bugfix.Rout' to 'bugfix.Rout.save' ...127,128c127,128
<  [1] 1.380852e-01 3.524764e-04 3.563710e-07 2.897682e-14 2.050268e-01
<  [6] 9.917862e-04 6.540450e-10 2.512705e-01 3.447725e-06 3.042641e-03
---
>  [1] 1.380883e-01 3.524764e-04 3.563710e-07 2.897682e-14 2.050268e-01
>  [6] 9.917862e-04 6.540452e-10 2.512705e-01 3.447725e-06 3.042641e-03
130c130
< [1] 0.0001321268
---
> [1] 0.0001910665
166c166
< 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333333,  :
---
> 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333334,  :
184c184
< 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333333,  :
---
> 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333334,  :
205c205
< 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333333,  :
---
> 2: In glht.matrix(model = list(coefficients = c(14.4166666666667, -5.83333333333334,  :
  Running 'regtest-Tukey.R'
  Comparing 'regtest-Tukey.Rout' to 'regtest-Tukey.Rout.save' ... OK
  Running 'regtest-anova.R'
  Comparing 'regtest-anova.Rout' to 'regtest-anova.Rout.save' ... OK
  Running 'regtest-interface-extended.R'
  Comparing 'regtest-interface-extended.Rout' to 'regtest-interface-extended.Rout.save' ... OK
  Running 'regtest-interface.R'
  Comparing 'regtest-interface.Rout' to 'regtest-interface.Rout.save' ... OK
  Running 'regtest-lme.R'
  Comparing 'regtest-lme.Rout' to 'regtest-lme.Rout.save' ... OK
  Running 'regtest-mmm.R'
* 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 outputs ... OK
* checking PDF version of manual ... OK