BioC 2.13: CHECK report for omicade4 on moscato1

Package: omicade4

Version: 1.2.2

Command: rm -rf omicade4.buildbin-libdir && mkdir omicade4.buildbin-libdir && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=omicade4.buildbin-libdir omicade4_1.2.2.tar.gz >omicade4-install.out 2>&1 && D:\biocbld\bbs-2.13-bioc\R\bin\R.exe CMD check --library=omicade4.buildbin-libdir --install="check:omicade4-install.out" --force-multiarch --no-vignettes --timings omicade4_1.2.2.tar.gz && mv omicade4.buildbin-libdir/* omicade4.Rcheck/ && rmdir omicade4.buildbin-libdir

StartedAt: 2014-04-05 05:34:34 -0700 (Sat, 05 Apr 2014)

EndedAt: 2014-04-05 05:35:36 -0700 (Sat, 05 Apr 2014)

EllapsedTime: 62.3 seconds

RetCode: 0

Status:  OK

CheckDir: omicade4.Rcheck

Warnings: 0

* using log directory 'D:/biocbld/bbs-2.13-bioc/meat/omicade4.Rcheck'
* using R version 3.0.3 (2014-03-06)
* using platform: i386-w64-mingw32 (32-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'omicade4/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'omicade4' version '1.2.2'
* 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 'omicade4' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking 'build' 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 dependencies in R code ... NOTE
Unexported objects imported by ':::' calls:
  'made4:::dudi.rwcoa' 'made4:::getdata'
  See the note in ?`:::` about the use of this operator.
See the information on DESCRIPTION files in the chapter 'Creating R
packages' of the 'Writing R Extensions' manual.
* 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 installed files from 'inst/doc' ... OK
* checking for old-style vignette sources ... NOTE
Vignette sources only in 'inst/doc':
  'omicade4.Rnw'
A 'vignettes' directory will be required as from R 3.1.0
* checking examples ...
** running examples for arch 'i386' ... [14s] OK
** running examples for arch 'x64' ... [17s] 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 vignette outputs ... SKIPPED
* checking PDF version of manual ... OK

NOTE: There were 2 notes.
See
  'D:/biocbld/bbs-2.13-bioc/meat/omicade4.Rcheck/00check.log'
for details.

install for i386

* installing *source* package 'omicade4' ...
** 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 'omicade4' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'omicade4' as omicade4_1.2.2.zip
* DONE (omicade4)

name	user	system	elapsed
NCI60_4arrays	1.57	0.00	1.58
mcia	1.48	0.00	1.48
omicade4-package	1.36	0.00	1.36
plotVar	3.21	0.02	3.35
plotVar.mcia	1.57	0.01	1.61
selectVar	2.78	0.00	2.77
selectVar.mcia	1.51	0.00	1.51

name	user	system	elapsed
NCI60_4arrays	1.73	0.03	1.76
mcia	1.68	0.03	1.76
omicade4-package	1.9	0.0	1.9
plotVar	3.60	0.08	3.68
plotVar.mcia	1.84	0.02	1.86
selectVar	3.45	0.00	3.45
selectVar.mcia	1.82	0.01	1.84