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BioC 3.5: CHECK report for daMA on tokay2

This page was generated on 2017-08-16 13:18:35 -0400 (Wed, 16 Aug 2017).

Package 313/1382HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
daMA 1.48.0
Jobst Landgrebe
Snapshot Date: 2017-08-15 17:17:57 -0400 (Tue, 15 Aug 2017)
URL: https://hedgehog.fhcrc.org/bioconductor/branches/RELEASE_3_5/madman/Rpacks/daMA
Last Changed Rev: 129126 / Revision: 131943
Last Changed Date: 2017-04-24 15:25:24 -0400 (Mon, 24 Apr 2017)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz2 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: daMA
Version: 1.48.0
Command: rm -rf daMA.buildbin-libdir daMA.Rcheck && mkdir daMA.buildbin-libdir daMA.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=daMA.buildbin-libdir daMA_1.48.0.tar.gz >daMA.Rcheck\00install.out 2>&1 && cp daMA.Rcheck\00install.out daMA-install.out && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=daMA.buildbin-libdir --install="check:daMA-install.out" --force-multiarch --no-vignettes --timings daMA_1.48.0.tar.gz
StartedAt: 2017-08-15 23:06:00 -0400 (Tue, 15 Aug 2017)
EndedAt: 2017-08-15 23:06:39 -0400 (Tue, 15 Aug 2017)
EllapsedTime: 38.9 seconds
RetCode: 0
Status:  OK  
CheckDir: daMA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   rm -rf daMA.buildbin-libdir daMA.Rcheck && mkdir daMA.buildbin-libdir daMA.Rcheck && C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=daMA.buildbin-libdir daMA_1.48.0.tar.gz >daMA.Rcheck\00install.out 2>&1 && cp daMA.Rcheck\00install.out daMA-install.out  &&  C:\Users\biocbuild\bbs-3.5-bioc\R\bin\R.exe CMD check --library=daMA.buildbin-libdir --install="check:daMA-install.out" --force-multiarch --no-vignettes --timings daMA_1.48.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.5-bioc/meat/daMA.Rcheck'
* using R version 3.4.1 (2017-06-30)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'daMA/DESCRIPTION' ... OK
* this is package 'daMA' version '1.48.0'
* 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 ... OK
* checking for portable file names ... OK
* checking whether package 'daMA' can be installed ... OK
* checking installed package size ... OK
* checking package directory ... OK
* checking DESCRIPTION meta-information ... NOTE
Malformed Description field: should contain one or more complete sentences.
* 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 ... NOTE
prepare_Rd: analyseMA.Rd:70: Dropping empty section \note
prepare_Rd: analyseMA.Rd:72: Dropping empty section \seealso
prepare_Rd: cmat.Rd:13-14: Dropping empty section \format
prepare_Rd: cmat.Rd:15-16: Dropping empty section \details
prepare_Rd: cmat.Rd:17-19: Dropping empty section \source
prepare_Rd: cmatB.AB.Rd:13-14: Dropping empty section \format
prepare_Rd: cmatB.AB.Rd:15-16: Dropping empty section \details
prepare_Rd: cmatB.AB.Rd:17-18: Dropping empty section \source
prepare_Rd: core.Rd:42: Dropping empty section \keyword
prepare_Rd: core.Rd:29-30: Dropping empty section \details
prepare_Rd: core.Rd:31-32: Dropping empty section \value
prepare_Rd: core.Rd:38: Dropping empty section \note
prepare_Rd: core.Rd:40: Dropping empty section \seealso
prepare_Rd: core.Rd:41: Dropping empty section \examples
prepare_Rd: data.3x2.Rd:15-16: Dropping empty section \details
prepare_Rd: data.3x2.Rd:21-22: Dropping empty section \references
prepare_Rd: designMA.Rd:66: Dropping empty section \note
prepare_Rd: designMA.Rd:68: Dropping empty section \seealso
prepare_Rd: id.3x2.Rd:14-15: Dropping empty section \details
prepare_Rd: id.3x2.Rd:16-17: Dropping empty section \source
prepare_Rd: id.3x2.Rd:18-19: 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 examples ...
** running examples for arch 'i386' ... OK
** running examples for arch 'x64' ... OK
* checking PDF version of manual ... OK
* DONE

Status: 2 NOTEs
See
  'C:/Users/biocbuild/bbs-3.5-bioc/meat/daMA.Rcheck/00check.log'
for details.


daMA.Rcheck/00install.out:


install for i386

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

install for x64

* installing *source* package 'daMA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'daMA' as daMA_1.48.0.zip
* DONE (daMA)

daMA.Rcheck/examples_i386/daMA-Ex.timings:

nameusersystemelapsed
analyseMA000
cinfo0.060.020.08
cinfoB.AB000
cmat0.000.010.01
cmatB.AB000
data.3x20.120.020.14
designMA0.020.000.02
designs.composite000
id.3x2000

daMA.Rcheck/examples_x64/daMA-Ex.timings:

nameusersystemelapsed
analyseMA000
cinfo0.080.000.08
cinfoB.AB000
cmat000
cmatB.AB000
data.3x20.140.000.14
designMA000
designs.composite000
id.3x20.000.010.01