• using R Under development (unstable) (2013-05-18 r62762)
• using platform: x86_64-unknown-linux-gnu (64-bit)
• using session charset: UTF-8
• checking for file ‘haplo.stats/DESCRIPTION’ ... OK
• this is package ‘haplo.stats’ version ‘1.6.3’
• 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 ‘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
• 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 ... 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 ... [13s/13s] OK
• checking for unstated dependencies in tests ... OK
• checking tests ... [50s/51s] OK
  Running ‘test.Ginv.R’ [3s/3s]
  Comparing ‘test.Ginv.Rout’ to ‘test.Ginv.Rout.save’ ... OK
  Running ‘test.haplo.em.R’ [14s/14s]
  Comparing ‘test.haplo.em.Rout’ to ‘test.haplo.em.Rout.save’ ... OK
  Running ‘test.haplo.power.R’ [1s/1s]
  Comparing ‘test.haplo.power.Rout’ to ‘test.haplo.power.Rout.save’ ... OK
  Running ‘test.methods.haplo.glm.R’ [33s/33s]
  Comparing ‘test.methods.haplo.glm.Rout’ to ‘test.methods.haplo.glm.Rout.save’ ...181c181
  < hap.77 -4.058363e-08 3.310615e-08 1.093231e-08 -1.238478e-09
  ---
  > hap.77 -4.058363e-08 3.310615e-08 1.093231e-08 -1.238479e-09
  185a186
  > hap.rare -4.058363e-08 3.310615e-08 1.093231e-08 -1.238479e-09
  188d188
  < hap.rare -4.058363e-08 3.310615e-08 1.093231e-08 -1.238479e-09
  206,207d205
  < hap.rare -2.569089e-09 8.519475e-10 1.374934e-08 8.440416e-09
  < hap.rare -2.569089e-09 8.519474e-10 1.374934e-08 8.440416e-09
  208a207,208
  > hap.rare -2.569089e-09 8.519473e-10 1.374934e-08 8.440416e-09
  > hap.rare -2.569089e-09 8.519475e-10 1.374934e-08 8.440416e-09
  217c217
  < geno.78 8.481883e-02 -3.191332e-06 8.519475e-10 8.519475e-10
  ---
  > geno.78 8.481883e-02 -3.191332e-06 8.519477e-10 8.519475e-10
  259c259
  < geno.78 8.519474e-10 8.519473e-10 8.519476e-10 1.703894e-09
  ---
  > geno.78 8.519475e-10 8.519473e-10 8.519475e-10 1.703894e-09
• checking PDF version of manual ... OK