• using R version 3.0.1 (2013-05-16)
• using platform: x86_64-w64-mingw32 (64-bit)
• using session charset: ISO8859-1
• checking for file 'supclust/DESCRIPTION' ... OK
• this is package 'supclust' version '1.0-7'
• package encoding: UTF-8
• 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 'supclust' 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
• 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 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
• loading checks for arch 'x64'
  ** 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
  .p.1gen: warning in formatC(id, wid = 6): partial argument match of
  'wid' to 'width'
  .p.1gen: warning in formatC(s, wid = 4): partial argument match of
  'wid' to 'width'
  .p.1gen: warning in formatC(format(c(round(m, digits = digits),
  0.735))[1], wid = 7, dig = 3): partial argument match of 'dig' to
  'digits'
  .p.1gen: warning in formatC(format(c(round(m, digits = digits),
  0.735))[1], wid = 7, dig = 3): partial argument match of 'wid' to
  'width'
  predict.pelora: warning in matrix(c((1/(1 + exp(-(X[, 1:(noc[i] + 1)]
  %*% koeff))))), nc = 1): partial argument match of 'nc' to 'ncol'
  ridge.coef: warning in diag(apply(X, 2, var) * lambda * nrow(X), nr =
  ncol(X)): partial argument match of 'nr' to 'nrow'
• 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 compiled code ... OK
• checking examples ...
  ** running examples for arch 'i386' ... OK
  ** running examples for arch 'x64' ... OK
• checking for unstated dependencies in tests ... OK
• checking tests ...
  ** running tests for arch 'i386' OK
  Running 'pelora-ex.R'
  Comparing 'pelora-ex.Rout' to 'pelora-ex.Rout.save' ...100,114c100,114
  < Entry 1 : Gene 69 (flipped)
  < Entry 2 : Gene 225 (flipped)
  < Entry 3 : Gene 126
  < Entry 4 : Gene 100 (flipped)
  < Entry 5 : Gene 204 (flipped)
  < Entry 6 : Gene 20 (flipped)
  < Entry 7 : Gene 215 (flipped)
  < Entry 8 : Gene 228 (flipped)
  < Entry 9 : Gene 105 (flipped)
  < Entry 10 : Gene 186
  < Entry 11 : Gene 173 (flipped)
  < Entry 12 : Gene 218 (flipped)
  < Entry 13 : Gene 222
  < Entry 14 : Gene 123 (flipped)
  < Entry 15 : Gene 58 (flipped)
  ---
  > Entry 1 : Gene 69
  > Entry 2 : Gene 225
  > Entry 3 : Gene 126 (flipped)
  > Entry 4 : Gene 100
  > Entry 5 : Gene 204
  > Entry 6 : Gene 20
  > Entry 7 : Gene 215
  > Entry 8 : Gene 228
  > Entry 9 : Gene 105
  > Entry 10 : Gene 186 (flipped)
  > Entry 11 : Gene 173
  > Entry 12 : Gene 218
  > Entry 13 : Gene 222 (flipped)
  > Entry 14 : Gene 123
  > Entry 15 : Gene 58
  135c135
  < -0.04619694 4.04250968 -4.92367256 4.75737556
  ---
  > -0.04619694 4.04250968 4.92367256 4.75737556
  139,176c139,176
  < 1 -0.2285066 0.12432003 -0.33983410
  < 2 -0.2017373 0.04138686 -0.38015308
  < 3 -0.2615608 0.04055937 -0.39419765
  < 4 -0.2780412 0.09475581 -0.34197622
  < 5 -0.2723402 0.09896039 -0.36545322
  < 6 -0.2570126 0.10788684 -0.30544423
  < 7 -0.2582871 0.06090086 -0.29378052
  < 8 -0.2432369 0.01509041 -0.38560155
  < 9 -0.2800386 0.05157562 -0.34834236
  < 10 -0.2349189 0.05628643 -0.30459387
  < 11 -0.3159678 0.10866037 -0.33425831
  < 12 -0.3399309 0.01791853 -0.39402569
  < 13 -0.3098570 0.06796453 -0.35068307
  < 14 -0.2911981 -0.01395371 -0.36716178
  < 15 -0.2804411 0.11240865 -0.35376125
  < 16 -0.2989401 0.04680822 -0.34514395
  < 17 -0.3064803 0.03457211 -0.29166647
  < 18 -0.3009477 0.04104916 -0.36065756
  < 19 -0.2803658 0.01647425 -0.34734494
  < 20 -0.3619075 0.02772715 -0.36860677
  < 21 -0.2534279 0.06582762 -0.32617354
  < 22 -0.2767475 0.05673009 -0.33408313
  < 23 -0.2594244 0.06804213 -0.33286369
  < 24 -0.2686963 0.05743951 -0.37159634
  < 25 -0.2493578 0.07558631 -0.33871439
  < 26 -0.3445316 0.05378141 -0.37364051
  < 27 -0.2656955 0.09953485 -0.35245539
  < 28 0.1830933 -0.33047470 0.02750604
  < 29 0.2351452 -0.33496886 0.08166425
  < 30 0.1945311 -0.39994464 0.07867998
  < 31 0.2281800 -0.35522562 0.04344020
  < 32 0.2371330 -0.36371202 0.10003395
  < 33 0.2427357 -0.31841017 0.07078407
  < 34 0.2418461 -0.35177789 0.05783627
  < 35 0.1971921 -0.33679719 0.04908993
  < 36 0.2026620 -0.34749665 0.08493945
  < 37 0.2051926 -0.31614019 0.12107278
  < 38 0.2108391 -0.32627858 0.07758265
  ---
  > 1 -0.2285066 -0.12432003 -0.33983410
  > 2 -0.2017373 -0.04138686 -0.38015308
  > 3 -0.2615608 -0.04055937 -0.39419765
  > 4 -0.2780412 -0.09475581 -0.34197622
  > 5 -0.2723402 -0.09896039 -0.36545322
  > 6 -0.2570126 -0.10788684 -0.30544423
  > 7 -0.2582871 -0.06090086 -0.29378052
  > 8 -0.2432369 -0.01509041 -0.38560155
  > 9 -0.2800386 -0.05157562 -0.34834236
  > 10 -0.2349189 -0.05628643 -0.30459387
  > 11 -0.3159678 -0.10866037 -0.33425831
  > 12 -0.3399309 -0.01791853 -0.39402569
  > 13 -0.3098570 -0.06796453 -0.35068307
  > 14 -0.2911981 0.01395371 -0.36716178
  > 15 -0.2804411 -0.11240865 -0.35376125
  > 16 -0.2989401 -0.04680822 -0.34514395
  > 17 -0.3064803 -0.03457211 -0.29166647
  > 18 -0.3009477 -0.04104916 -0.36065756
  > 19 -0.2803658 -0.01647425 -0.34734494
  > 20 -0.3619075 -0.02772715 -0.36860677
  > 21 -0.2534279 -0.06582762 -0.32617354
  > 22 -0.2767475 -0.05673009 -0.33408313
  > 23 -0.2594244 -0.06804213 -0.33286369
  > 24 -0.2686963 -0.05743951 -0.37159634
  > 25 -0.2493578 -0.07558631 -0.33871439
  > 26 -0.3445316 -0.05378141 -0.37364051
  > 27 -0.2656955 -0.09953485 -0.35245539
  > 28 0.1830933 0.33047470 0.02750604
  > 29 0.2351452 0.33496886 0.08166425
  > 30 0.1945311 0.39994464 0.07867998
  > 31 0.2281800 0.35522562 0.04344020
  > 32 0.2371330 0.36371202 0.10003395
  > 33 0.2427357 0.31841017 0.07078407
  > 34 0.2418461 0.35177789 0.05783627
  > 35 0.1971921 0.33679719 0.04908993
  > 36 0.2026620 0.34749665 0.08493945
  > 37 0.2051926 0.31614019 0.12107278
  > 38 0.2108391 0.32627858 0.07758265
  263,265c263,265
  < 1 0.1799321 0.19641747 0.4566692
  < 2 0.3055774 0.04751572 -0.0557937
  < 3 -0.1820159 0.25441379 -0.0938568
  ---
  > 1 0.1799321 -0.19641747 0.4566692
  > 2 0.3055774 -0.04751572 -0.0557937
  > 3 -0.1820159 -0.25441379 -0.0938568
  507,521c507,521
  < Entry 1 : Gene 69 (flipped) : Name V69
  < Entry 2 : Gene 225 (flipped) : Name V225
  < Entry 3 : Gene 126 : Name V126
  < Entry 4 : Gene 100 (flipped) : Name V100
  < Entry 5 : Gene 204 (flipped) : Name V204
  < Entry 6 : Gene 20 (flipped) : Name V20
  < Entry 7 : Gene 215 (flipped) : Name V215
  < Entry 8 : Gene 228 (flipped) : Name V228
  < Entry 9 : Gene 105 (flipped) : Name V105
  < Entry 10 : Gene 186 : Name V186
  < Entry 11 : Gene 173 (flipped) : Name V173
  < Entry 12 : Gene 218 (flipped) : Name V218
  < Entry 13 : Gene 222 : Name V222
  < Entry 14 : Gene 123 (flipped) : Name V123
  < Entry 15 : Gene 58 (flipped) : Name V58
  ---
  > Entry 1 : Gene 69 : Name V69
  > Entry 2 : Gene 225 : Name V225
  > Entry 3 : Gene 126 (flipped) : Name V126
  > Entry 4 : Gene 100 : Name V100
  > Entry 5 : Gene 204 : Name V204
  > Entry 6 : Gene 20 : Name V20
  > Entry 7 : Gene 215 : Name V215
  > Entry 8 : Gene 228 : Name V228
  > Entry 9 : Gene 105 : Name V105
  > Entry 10 : Gene 186 (flipped) : Name V186
  > Entry 11 : Gene 173 : Name V173
  > Entry 12 : Gene 218 : Name V218
  > Entry 13 : Gene 222 (flipped) : Name V222
  > Entry 14 : Gene 123 : Name V123
  > Entry 15 : Gene 58 : Name V58
  542c542
  < -0.04619694 4.04250968 -4.92367256 4.75737556
  ---
  > -0.04619694 4.04250968 4.92367256 4.75737556
  546,583c546,583
  < 1 -0.2285066 0.12432003 -0.33983410
  < 2 -0.2017373 0.04138686 -0.38015308
  < 3 -0.2615608 0.04055937 -0.39419765
  < 4 -0.2780412 0.09475581 -0.34197622
  < 5 -0.2723402 0.09896039 -0.36545322
  < 6 -0.2570126 0.10788684 -0.30544423
  < 7 -0.2582871 0.06090086 -0.29378052
  < 8 -0.2432369 0.01509041 -0.38560155
  < 9 -0.2800386 0.05157562 -0.34834236
  < 10 -0.2349189 0.05628643 -0.30459387
  < 11 -0.3159678 0.10866037 -0.33425831
  < 12 -0.3399309 0.01791853 -0.39402569
  < 13 -0.3098570 0.06796453 -0.35068307
  < 14 -0.2911981 -0.01395371 -0.36716178
  < 15 -0.2804411 0.11240865 -0.35376125
  < 16 -0.2989401 0.04680822 -0.34514395
  < 17 -0.3064803 0.03457211 -0.29166647
  < 18 -0.3009477 0.04104916 -0.36065756
  < 19 -0.2803658 0.01647425 -0.34734494
  < 20 -0.3619075 0.02772715 -0.36860677
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  < 22 -0.2767475 0.05673009 -0.33408313
  < 23 -0.2594244 0.06804213 -0.33286369
  < 24 -0.2686963 0.05743951 -0.37159634
  < 25 -0.2493578 0.07558631 -0.33871439
  < 26 -0.3445316 0.05378141 -0.37364051
  < 27 -0.2656955 0.09953485 -0.35245539
  < 28 0.1830933 -0.33047470 0.02750604
  < 29 0.2351452 -0.33496886 0.08166425
  < 30 0.1945311 -0.39994464 0.07867998
  < 31 0.2281800 -0.35522562 0.04344020
  < 32 0.2371330 -0.36371202 0.10003395
  < 33 0.2427357 -0.31841017 0.07078407
  < 34 0.2418461 -0.35177789 0.05783627
  < 35 0.1971921 -0.33679719 0.04908993
  < 36 0.2026620 -0.34749665 0.08493945
  < 37 0.2051926 -0.31614019 0.12107278
  < 38 0.2108391 -0.32627858 0.07758265
  ---
  > 1 -0.2285066 -0.12432003 -0.33983410
  > 2 -0.2017373 -0.04138686 -0.38015308
  > 3 -0.2615608 -0.04055937 -0.39419765
  > 4 -0.2780412 -0.09475581 -0.34197622
  > 5 -0.2723402 -0.09896039 -0.36545322
  > 6 -0.2570126 -0.10788684 -0.30544423
  > 7 -0.2582871 -0.06090086 -0.29378052
  > 8 -0.2432369 -0.01509041 -0.38560155
  > 9 -0.2800386 -0.05157562 -0.34834236
  > 10 -0.2349189 -0.05628643 -0.30459387
  > 11 -0.3159678 -0.10866037 -0.33425831
  > 12 -0.3399309 -0.01791853 -0.39402569
  > 13 -0.3098570 -0.06796453 -0.35068307
  > 14 -0.2911981 0.01395371 -0.36716178
  > 15 -0.2804411 -0.11240865 -0.35376125
  > 16 -0.2989401 -0.04680822 -0.34514395
  > 17 -0.3064803 -0.03457211 -0.29166647
  > 18 -0.3009477 -0.04104916 -0.36065756
  > 19 -0.2803658 -0.01647425 -0.34734494
  > 20 -0.3619075 -0.02772715 -0.36860677
  > 21 -0.2534279 -0.06582762 -0.32617354
  > 22 -0.2767475 -0.05673009 -0.33408313
  > 23 -0.2594244 -0.06804213 -0.33286369
  > 24 -0.2686963 -0.05743951 -0.37159634
  > 25 -0.2493578 -0.07558631 -0.33871439
  > 26 -0.3445316 -0.05378141 -0.37364051
  > 27 -0.2656955 -0.09953485 -0.35245539
  > 28 0.1830933 0.33047470 0.02750604
  > 29 0.2351452 0.33496886 0.08166425
  > 30 0.1945311 0.39994464 0.07867998
  > 31 0.2281800 0.35522562 0.04344020
  > 32 0.2371330 0.36371202 0.10003395
  > 33 0.2427357 0.31841017 0.07078407
  > 34 0.2418461 0.35177789 0.05783627
  > 35 0.1971921 0.33679719 0.04908993
  > 36 0.2026620 0.34749665 0.08493945
  > 37 0.2051926 0.31614019 0.12107278
  > 38 0.2108391 0.32627858 0.07758265
  670,672c670,672
  < 1 0.1799321 0.19641747 0.4566692
  < 2 0.3055774 0.04751572 -0.0557937
  < 3 -0.1820159 0.25441379 -0.0938568
  ---
  > 1 0.1799321 -0.19641747 0.4566692
  > 2 0.3055774 -0.04751572 -0.0557937
  > 3 -0.1820159 -0.25441379 -0.0938568
  Running 'wilma-ex.R'
  Comparing 'wilma-ex.Rout' to 'wilma-ex.Rout.save' ... OK
  ** running tests for arch 'x64' OK
  Running 'pelora-ex.R'
  Comparing 'pelora-ex.Rout' to 'pelora-ex.Rout.save' ... OK
  Running 'wilma-ex.R'
  Comparing 'wilma-ex.Rout' to 'wilma-ex.Rout.save' ... OK
• checking PDF version of manual ... OK
  NOTE: There was 1 note.
  See
  'd:/Rcompile/CRANpkg/local/3.0/supclust.Rcheck/00check.log'
  for details.