BioC 2.12: CHECK report for Rcade on moscato2

Package: Rcade

Version: 1.2.0

Command: rm -rf Rcade.buildbin-libdir && mkdir Rcade.buildbin-libdir && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=Rcade.buildbin-libdir Rcade_1.2.0.tar.gz >Rcade-install.out 2>&1 && E:\biocbld\bbs-2.12-bioc\R\bin\R.exe CMD check --library=Rcade.buildbin-libdir --install="check:Rcade-install.out" --force-multiarch --no-vignettes --timings Rcade_1.2.0.tar.gz && mv Rcade.buildbin-libdir/* Rcade.Rcheck/ && rmdir Rcade.buildbin-libdir

StartedAt: 2013-10-09 03:47:15 -0700 (Wed, 09 Oct 2013)

EndedAt: 2013-10-09 03:51:49 -0700 (Wed, 09 Oct 2013)

EllapsedTime: 273.8 seconds

RetCode: 0

Status: OK

CheckDir: Rcade.Rcheck

Warnings: 0

* using log directory 'E:/biocbld/bbs-2.12-bioc/meat/Rcade.Rcheck'
* using R version 3.0.1 (2013-05-16)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'Rcade/DESCRIPTION' ... OK
* this is package 'Rcade' version '1.2.0'
* 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 ... NOTE
Found the following hidden files and directories:
  .BBSoptions
These were most likely included in error. See section 'Package
structure' in the 'Writing R Extensions' manual.
* checking for portable file names ... OK
* checking whether package 'Rcade' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.6Mb
  sub-directories of 1Mb or more:
    extdata   5.2Mb
* 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
* 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 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 ... NOTE
prepare_Rd: constructRcadeTable.Rd:43-45: Dropping empty section \details
prepare_Rd: constructRcadeTable.Rd:46-52: Dropping empty section \value
prepare_Rd: constructRcadeTable.Rd:59-61: Dropping empty section \note
prepare_Rd: constructRcadeTable.Rd:56-58: Dropping empty section \author
prepare_Rd: constructRcadeTable.Rd:53-55: Dropping empty section \references
prepare_Rd: diffCountsBaySeq.Rd:58-60: Dropping empty section \note
prepare_Rd: diffCountsBaySeq.Rd:54-56: Dropping empty section \references
* 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 installed files from 'inst/doc' ... OK
* checking examples ...
** running examples for arch 'i386' ... [32s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
diffCountsBaySeq 11.39   0.00   11.40
RcadeAnalysis    10.38   0.04   10.42
** running examples for arch 'x64' ... [43s] OK
Examples with CPU or elapsed time > 5s
                  user system elapsed
RcadeAnalysis    15.02   0.02   15.03
diffCountsBaySeq 15.00   0.00   15.01
* checking for unstated dependencies in tests ... OK
* checking tests ...
** running tests for arch 'i386'
  Running 'runTests.R' [12s]
 [12s] OK
** running tests for arch 'x64'
  Running 'runTests.R' [12s]
 [12s] OK
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in 'inst/doc' ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignettes ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 3 notes.
See
  'E:/biocbld/bbs-2.12-bioc/meat/Rcade.Rcheck/00check.log'
for details.


install for i386

* installing *source* package 'Rcade' ...
** R
** data
** inst
** preparing package for lazy loading
** help
*** installing help indices
** building package indices
** installing vignettes
** testing if installed package can be loaded

install for x64

* installing *source* package 'Rcade' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'Rcade' as Rcade_1.2.0.zip
* DONE (Rcade)

BioC 2.12: CHECK report for Rcade on moscato2

Summary

Command output