• using R Under development (unstable) (2012-02-06 r58287)
• using platform: i686-pc-linux-gnu (32-bit)
• using session charset: UTF-8
• checking for file ‘RobLoxBioC/DESCRIPTION’ ... OK
• this is package ‘RobLoxBioC’ version ‘0.8.2’
• package encoding: latin1
• 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 whether package ‘RobLoxBioC’ can be installed ... OK
• checking installed package size ... OK
• checking package directory ... OK
• checking for portable file names ... OK
• checking for sufficient/correct file permissions ... OK
• checking DESCRIPTION meta-information ... OK
• checking top-level 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 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 R/sysdata.rda ... OK
• checking examples ... [16s/16s] OK
• checking differences from ‘RobLoxBioC-Ex.Rout’ to ‘RobLoxBioC-Ex.Rout.save’ ...
  3,15d2
  < Attaching package: 'BiocGenerics'
  <
  < The following object(s) are masked from 'package:stats':
  <
  < xtabs
  <
  < The following object(s) are masked from 'package:base':
  <
  < Filter, Find, Map, Position, Reduce, anyDuplicated, cbind,
  < colnames, duplicated, eval, intersect, lapply, mapply, order,
  < paste, pmax, pmax.int, pmin, pmin.int, rbind, rep.int, rownames,
  < sapply, setdiff, table, tapply, union, unique
  <
  18c5
  < Vignettes contain introductory material; view with
  ---
  > Vignettes contain introductory material. To view, type
  20c7
  < 'citation("Biobase")', and for packages 'citation("pkgname")'.
  ---
  > 'citation("Biobase")' and for packages 'citation("pkgname")'.
  29c16
  < Welcome to beadarray version 2.5.8
  ---
  > Welcome to beadarray version 2.4.1
  38c25
  < :startupmsg> Utilities for start-up messages (version 0.7.2)
  ---
  > :startupmsg> Utilities for start-up messages (version 0.7.3)
  45c32
  < :SweaveListingUtils> 0.5.5)
  ---
  > :SweaveListingUtils> 0.5.4)
  71c58
  < :distr> 2.3.3)
  ---
  > :distr> 2.3.4)
  110c97
  < :distrEx> Extensions of package distr (version 2.3.1)
  ---
  > :distrEx> Extensions of package distr (version 2.3.2)
  138c125
  < :distrMod> (version 2.3.1)
  ---
  > :distrMod> (version 2.3.3)
  244,245c231,232
  < [1] 0.1642185 0.1567706 0.1571387 0.1609188 0.1617499 0.1607157 0.1382646
  < [8] 0.1471997 0.1693088 0.1836652 0.1787724 0.1601283 0.1728984 0.1519412
  ---
  > [1] 0.1755693 0.1567648 0.1571403 0.1609188 0.1617499 0.1607157 0.1382646
  > [8] 0.1471997 0.1693088 0.1836652 0.1787724 0.1601283 0.1729001 0.1519412
  366c353
  < 4.596 0.488 5.083
  ---
  > 5.597 0.044 5.660
  376c363
  < > concentrations <- as.numeric(colnames(SpikeIn))
  ---
  > > concentrations <- as.numeric(sampleNames(SpikeIn))
  OK
• checking PDF version of manual ... OK