* using log directory 'd:/Rcompile/CRANpkg/local/3.0/haplo.stats.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 'haplo.stats/DESCRIPTION' ... OK * this is package 'haplo.stats' version '1.6.11' * 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 'haplo.stats' 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 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 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 ... ** 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 'test.haplo.cc.R' Comparing 'test.haplo.cc.Rout' to 'test.haplo.cc.Rout.save' ... OK Running 'test.haplo.em.R' Comparing 'test.haplo.em.Rout' to 'test.haplo.em.Rout.save' ...108,110c108,110 < 9 1 f g h1 F G h1 0.577 < 4 2 F g H F G h1 0.000 < 5.1 2 F g h1 F G H 1.000 --- > 2 1 F G h1 f g h1 0.577 > 2.1 2 F G h1 F g H 0.000 > 1 2 F G H F g h1 1.000 112c112 < 10 4 f g h2 f G h1 0.000 --- > 7 4 f G h1 f g h2 0.000 114,119c114,119 < 6.1 5 F g h2 F G H 1.000 < 7 6 f G h1 f G h2 1.000 < 8.1 7 f G h2 F g h2 1.000 < 5.2 8 F g h1 F G H 0.251 < 4.1 8 F g H F G h1 0.000 < 5.3 8 F g h1 F G h1 0.402 --- > 1.1 5 F G H F g h2 1.000 > 7.1 6 f G h1 f G h2 1.000 > 6.1 7 F g h2 f G h2 1.000 > 1.2 8 F G H F g h1 0.251 > 2.2 8 F G h1 F g H 0.000 > 2.3 8 F G h1 F g h1 0.402 121,127c121,127 < 6.2 8 F g h2 F G h1 0.347 < 2 9 F G h1 f G h1 0.184 < 7.1 9 f G h1 F g h1 0.208 < 2.1 9 F G h1 f g h1 0.285 < 9.1 9 f g h1 F g h1 0.323 < 2.2 10 F G h1 f g h2 0.000 < 5.4 10 F g h1 f G h2 0.762 --- > 2.4 8 F G h1 F g h2 0.347 > 2.5 9 F G h1 f G h1 0.184 > 2.6 9 F G h1 f g h1 0.285 > 5.1 9 F g h1 f G h1 0.209 > 5.2 9 F g h1 f g h1 0.323 > 2.7 10 F G h1 f g h2 0.000 > 5.3 10 F g h1 f G h2 0.762 129,139c129,139 < 7.2 10 f G h1 F g h2 0.238 < 2.3 11 F G h1 f G h2 1.000 < 7.3 11 f G h1 F G h2 0.000 < 1 12 F G H F g h1 0.251 < 2.4 12 F G h1 F g H 0.000 < 2.5 12 F G h1 F g h1 0.402 < 3.2 12 F G h2 F g h1 0.000 < 2.6 12 F G h1 F g h2 0.347 < 7.4 13 f G h1 F G h1 0.184 < 7.5 13 f G h1 F g h1 0.208 < 9.2 13 f g h1 F G h1 0.285 --- > 6.2 10 F g h2 f G h1 0.238 > 2.8 11 F G h1 f G h2 1.000 > 3.2 11 F G h2 f G h1 0.000 > 1.3 12 F G H F g h1 0.251 > 2.9 12 F G h1 F g H 0.000 > 2.10 12 F G h1 F g h1 0.402 > 3.3 12 F G h2 F g h1 0.000 > 2.11 12 F G h1 F g h2 0.347 > 2.12 13 F G h1 f G h1 0.184 > 2.13 13 F G h1 f g h1 0.285 > 5.4 13 F g h1 f G h1 0.209 141,142c141,142 < 7.6 14 f G h1 f g h2 0.000 < 8.2 14 f G h2 f g h1 1.000 --- > 7.2 14 f G h1 f g h2 0.000 > 8.1 14 f G h2 f g h1 1.000 158,160c158,160 < 2 1 9 2 0.577 < 3 2 4 2 0.000 < 4 2 5 1 1.000 --- > 2 1 2 9 0.577 > 3 2 2 4 0.000 > 4 2 1 5 1.000 162c162 < 6 4 10 7 0.000 --- > 6 4 7 10 0.000 164c164 < 8 5 6 1 1.000 --- > 8 5 1 6 1.000 166,169c166,169 < 10 7 8 6 1.000 < 11 8 5 1 0.251 < 12 8 4 2 0.000 < 13 8 5 2 0.402 --- > 10 7 6 8 1.000 > 11 8 1 5 0.251 > 12 8 2 4 0.000 > 13 8 2 5 0.402 171c171 < 15 8 6 2 0.347 --- > 15 8 2 6 0.347 173,175c173,175 < 17 9 7 5 0.208 < 18 9 2 9 0.285 < 19 9 9 5 0.323 --- > 17 9 2 9 0.285 > 18 9 5 7 0.209 > 19 9 5 9 0.323 179c179 < 23 10 7 6 0.238 --- > 23 10 6 7 0.238 181c181 < 25 11 7 3 0.000 --- > 25 11 3 7 0.000 187,189c187,189 < 31 13 7 2 0.184 < 32 13 7 5 0.208 < 33 13 9 2 0.285 --- > 31 13 2 7 0.184 > 32 13 2 9 0.285 > 33 13 5 7 0.209 469c469 < 3 11122122 1.56e-01 0.1565 --- > 3 11122122 1.57e-01 0.1565 477c477 < 1 1 21221112 11121112 1.00e+00 21221112 11121112 --- > 1 1 11121112 21221112 1.00e+00 21221112 11121112 481c481 < 5 5 12212211 11121112 9.06e-01 12212211 11121112 --- > 5 5 11121112 12212211 9.06e-01 12212211 11121112 487c487 < 11 10 12221112 12212211 1.00e+00 12212211 12221112 --- > 11 10 12212211 12221112 1.00e+00 12212211 12221112 492c492 < 16 14 11121112 11112211 1.00e+00 11121112 11112211 --- > 16 14 11112211 11121112 1.00e+00 11121112 11112211 496c496 < 20 17 12212211 11122122 1.00e+00 12212211 11122122 --- > 20 17 11122122 12212211 1.00e+00 12212211 11122122 501,502c501,502 < 25 22 11122122 11121112 1.00e+00 11121112 11122122 < 26 23 12212211 11121112 9.06e-01 11121112 12212211 --- > 25 22 11121112 11122122 1.00e+00 11121112 11122122 > 26 23 11121112 12212211 9.06e-01 11121112 12212211 505c505 < 29 25 21112212 11122122 1.00e+00 11122122 21112212 --- > 29 25 11122122 21112212 1.00e+00 11122122 21112212 511,512c511,512 < 35 31 11122122 11121112 1.00e+00 11122122 11121112 < 36 32 21112212 11122122 1.00e+00 11122122 21112212 --- > 35 31 11121112 11122122 1.00e+00 11122122 11121112 > 36 32 11122122 21112212 1.00e+00 11122122 21112212 514,516c514,516 < 38 34 11122122 11121112 1.00e+00 11122122 11121112 < 39 35 21221112 21112212 1.00e+00 21221112 21112212 < 40 36 12221112 11121112 1.00e+00 11121112 12221112 --- > 38 34 11121112 11122122 1.00e+00 11122122 11121112 > 39 35 21112212 21221112 1.00e+00 21221112 21112212 > 40 36 11121112 12221112 1.00e+00 11121112 12221112 520,522c520,522 < 44 40 21112212 12212211 1.00e+00 21112212 12212211 < 45 40 22212212 11112211 1.14e-08 21112212 12212211 < 46 41 12212211 11121112 9.06e-01 12212211 11121112 --- > 44 40 12212211 21112212 1.00e+00 21112212 12212211 > 45 40 11112211 22212212 1.14e-08 21112212 12212211 > 46 41 11121112 12212211 9.06e-01 12212211 11121112 526c526 < 50 44 21112212 12212211 1.00e+00 21112212 12212211 --- > 50 44 12212211 21112212 1.00e+00 21112212 12212211 Running 'test.haplo.power.R' Comparing 'test.haplo.power.Rout' to 'test.haplo.power.Rout.save' ... OK ** running tests for arch 'x64' OK Running 'test.haplo.cc.R' Comparing 'test.haplo.cc.Rout' to 'test.haplo.cc.Rout.save' ... OK Running 'test.haplo.em.R' Comparing 'test.haplo.em.Rout' to 'test.haplo.em.Rout.save' ...108,110c108,110 < 9 1 f g h1 F G h1 0.577 < 4 2 F g H F G h1 0.000 < 5.1 2 F g h1 F G H 1.000 --- > 2 1 F G h1 f g h1 0.577 > 2.1 2 F G h1 F g H 0.000 > 1 2 F G H F g h1 1.000 112c112 < 10 4 f g h2 f G h1 0.000 --- > 7 4 f G h1 f g h2 0.000 114,119c114,119 < 6.1 5 F g h2 F G H 1.000 < 7 6 f G h1 f G h2 1.000 < 8.1 7 f G h2 F g h2 1.000 < 5.2 8 F g h1 F G H 0.251 < 4.1 8 F g H F G h1 0.000 < 5.3 8 F g h1 F G h1 0.402 --- > 1.1 5 F G H F g h2 1.000 > 7.1 6 f G h1 f G h2 1.000 > 6.1 7 F g h2 f G h2 1.000 > 1.2 8 F G H F g h1 0.251 > 2.2 8 F G h1 F g H 0.000 > 2.3 8 F G h1 F g h1 0.402 121,127c121,127 < 6.2 8 F g h2 F G h1 0.347 < 2 9 F G h1 f G h1 0.184 < 7.1 9 f G h1 F g h1 0.208 < 2.1 9 F G h1 f g h1 0.285 < 9.1 9 f g h1 F g h1 0.323 < 2.2 10 F G h1 f g h2 0.000 < 5.4 10 F g h1 f G h2 0.762 --- > 2.4 8 F G h1 F g h2 0.347 > 2.5 9 F G h1 f G h1 0.184 > 2.6 9 F G h1 f g h1 0.285 > 5.1 9 F g h1 f G h1 0.209 > 5.2 9 F g h1 f g h1 0.323 > 2.7 10 F G h1 f g h2 0.000 > 5.3 10 F g h1 f G h2 0.762 129,139c129,139 < 7.2 10 f G h1 F g h2 0.238 < 2.3 11 F G h1 f G h2 1.000 < 7.3 11 f G h1 F G h2 0.000 < 1 12 F G H F g h1 0.251 < 2.4 12 F G h1 F g H 0.000 < 2.5 12 F G h1 F g h1 0.402 < 3.2 12 F G h2 F g h1 0.000 < 2.6 12 F G h1 F g h2 0.347 < 7.4 13 f G h1 F G h1 0.184 < 7.5 13 f G h1 F g h1 0.208 < 9.2 13 f g h1 F G h1 0.285 --- > 6.2 10 F g h2 f G h1 0.238 > 2.8 11 F G h1 f G h2 1.000 > 3.2 11 F G h2 f G h1 0.000 > 1.3 12 F G H F g h1 0.251 > 2.9 12 F G h1 F g H 0.000 > 2.10 12 F G h1 F g h1 0.402 > 3.3 12 F G h2 F g h1 0.000 > 2.11 12 F G h1 F g h2 0.347 > 2.12 13 F G h1 f G h1 0.184 > 2.13 13 F G h1 f g h1 0.285 > 5.4 13 F g h1 f G h1 0.209 141,142c141,142 < 7.6 14 f G h1 f g h2 0.000 < 8.2 14 f G h2 f g h1 1.000 --- > 7.2 14 f G h1 f g h2 0.000 > 8.1 14 f G h2 f g h1 1.000 158,160c158,160 < 2 1 9 2 0.577 < 3 2 4 2 0.000 < 4 2 5 1 1.000 --- > 2 1 2 9 0.577 > 3 2 2 4 0.000 > 4 2 1 5 1.000 162c162 < 6 4 10 7 0.000 --- > 6 4 7 10 0.000 164c164 < 8 5 6 1 1.000 --- > 8 5 1 6 1.000 166,169c166,169 < 10 7 8 6 1.000 < 11 8 5 1 0.251 < 12 8 4 2 0.000 < 13 8 5 2 0.402 --- > 10 7 6 8 1.000 > 11 8 1 5 0.251 > 12 8 2 4 0.000 > 13 8 2 5 0.402 171c171 < 15 8 6 2 0.347 --- > 15 8 2 6 0.347 173,175c173,175 < 17 9 7 5 0.208 < 18 9 2 9 0.285 < 19 9 9 5 0.323 --- > 17 9 2 9 0.285 > 18 9 5 7 0.209 > 19 9 5 9 0.323 179c179 < 23 10 7 6 0.238 --- > 23 10 6 7 0.238 181c181 < 25 11 7 3 0.000 --- > 25 11 3 7 0.000 187,189c187,189 < 31 13 7 2 0.184 < 32 13 7 5 0.208 < 33 13 9 2 0.285 --- > 31 13 2 7 0.184 > 32 13 2 9 0.285 > 33 13 5 7 0.209 469c469 < 3 11122122 1.56e-01 0.1565 --- > 3 11122122 1.57e-01 0.1565 477c477 < 1 1 21221112 11121112 1.00e+00 21221112 11121112 --- > 1 1 11121112 21221112 1.00e+00 21221112 11121112 481c481 < 5 5 12212211 11121112 9.06e-01 12212211 11121112 --- > 5 5 11121112 12212211 9.06e-01 12212211 11121112 487c487 < 11 10 12221112 12212211 1.00e+00 12212211 12221112 --- > 11 10 12212211 12221112 1.00e+00 12212211 12221112 492c492 < 16 14 11121112 11112211 1.00e+00 11121112 11112211 --- > 16 14 11112211 11121112 1.00e+00 11121112 11112211 496c496 < 20 17 12212211 11122122 1.00e+00 12212211 11122122 --- > 20 17 11122122 12212211 1.00e+00 12212211 11122122 501,502c501,502 < 25 22 11122122 11121112 1.00e+00 11121112 11122122 < 26 23 12212211 11121112 9.06e-01 11121112 12212211 --- > 25 22 11121112 11122122 1.00e+00 11121112 11122122 > 26 23 11121112 12212211 9.06e-01 11121112 12212211 505c505 < 29 25 21112212 11122122 1.00e+00 11122122 21112212 --- > 29 25 11122122 21112212 1.00e+00 11122122 21112212 511,512c511,512 < 35 31 11122122 11121112 1.00e+00 11122122 11121112 < 36 32 21112212 11122122 1.00e+00 11122122 21112212 --- > 35 31 11121112 11122122 1.00e+00 11122122 11121112 > 36 32 11122122 21112212 1.00e+00 11122122 21112212 514,516c514,516 < 38 34 11122122 11121112 1.00e+00 11122122 11121112 < 39 35 21221112 21112212 1.00e+00 21221112 21112212 < 40 36 12221112 11121112 1.00e+00 11121112 12221112 --- > 38 34 11121112 11122122 1.00e+00 11122122 11121112 > 39 35 21112212 21221112 1.00e+00 21221112 21112212 > 40 36 11121112 12221112 1.00e+00 11121112 12221112 520,522c520,522 < 44 40 21112212 12212211 1.00e+00 21112212 12212211 < 45 40 22212212 11112211 1.14e-08 21112212 12212211 < 46 41 12212211 11121112 9.06e-01 12212211 11121112 --- > 44 40 12212211 21112212 1.00e+00 21112212 12212211 > 45 40 11112211 22212212 1.14e-08 21112212 12212211 > 46 41 11121112 12212211 9.06e-01 12212211 11121112 526c526 < 50 44 21112212 12212211 1.00e+00 21112212 12212211 --- > 50 44 12212211 21112212 1.00e+00 21112212 12212211 Running 'test.haplo.power.R' Comparing 'test.haplo.power.Rout' to 'test.haplo.power.Rout.save' ... OK * checking PDF version of manual ... OK