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CHECK report for daMA on tokay2

This page was generated on 2018-10-17 08:31:56 -0400 (Wed, 17 Oct 2018).

Package 343/1561HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
daMA 1.52.0
Jobst Landgrebe
Snapshot Date: 2018-10-15 16:45:08 -0400 (Mon, 15 Oct 2018)
URL: https://git.bioconductor.org/packages/daMA
Branch: RELEASE_3_7
Last Commit: 0126cdf
Last Changed Date: 2018-04-30 10:34:57 -0400 (Mon, 30 Apr 2018)
malbec2 Linux (Ubuntu 16.04.1 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
tokay2 Windows Server 2012 R2 Standard / x64  OK  OK [ OK ] OK UNNEEDED, same version exists in internal repository
merida2 OS X 10.11.6 El Capitan / x86_64  OK  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: daMA
Version: 1.52.0
Command: C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:daMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings daMA_1.52.0.tar.gz
StartedAt: 2018-10-17 01:26:51 -0400 (Wed, 17 Oct 2018)
EndedAt: 2018-10-17 01:27:19 -0400 (Wed, 17 Oct 2018)
EllapsedTime: 28.1 seconds
RetCode: 0
Status:  OK  
CheckDir: daMA.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:daMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.7-bioc\R\library --no-vignettes --timings daMA_1.52.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.7-bioc/meat/daMA.Rcheck'
* using R version 3.5.1 Patched (2018-07-24 r75005)
* 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 '1.52.0'
* 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
* 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 ... 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-3.7-bioc/meat/daMA.Rcheck/00check.log'
for details.



Installation output

daMA.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O https://malbec2.bioconductor.org/BBS/3.7/bioc/src/contrib/daMA_1.52.0.tar.gz && rm -rf daMA.buildbin-libdir && mkdir daMA.buildbin-libdir && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=daMA.buildbin-libdir daMA_1.52.0.tar.gz && C:\Users\biocbuild\bbs-3.7-bioc\R\bin\R.exe CMD INSTALL daMA_1.52.0.zip && rm daMA_1.52.0.tar.gz daMA_1.52.0.zip
###
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  % Total    % Received % Xferd  Average Speed   Time    Time     Time  Current
                                 Dload  Upload   Total   Spent    Left  Speed

  0     0    0     0    0     0      0      0 --:--:-- --:--:-- --:--:--     0
100 4120k  100 4120k    0     0  37.5M      0 --:--:-- --:--:-- --:--:-- 39.8M

install for i386

* installing *source* package 'daMA' ...
** R
** data
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'daMA'
    finding HTML links ... done
    analyseMA                               html  
    cinfo                                   html  
    cinfoB.AB                               html  
    cmat                                    html  
    cmatB.AB                                html  
    core                                    html  
    data.3x2                                html  
    designMA                                html  
    designs.basic                           html  
    designs.composite                       html  
    id.3x2                                  html  
** building package indices
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'daMA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'daMA' as daMA_1.52.0.zip
* DONE (daMA)
In R CMD INSTALL
In R CMD INSTALL
* installing to library 'C:/Users/biocbuild/bbs-3.7-bioc/R/library'
package 'daMA' successfully unpacked and MD5 sums checked
In R CMD INSTALL

Tests output


Example timings

daMA.Rcheck/examples_i386/daMA-Ex.timings

nameusersystemelapsed
analyseMA000
cinfo0.030.000.03
cinfoB.AB0.000.010.02
cmat000
cmatB.AB000
data.3x20.060.020.07
designMA0.020.000.02
designs.composite000
id.3x2000

daMA.Rcheck/examples_x64/daMA-Ex.timings

nameusersystemelapsed
analyseMA000
cinfo0.010.020.03
cinfoB.AB0.000.010.01
cmat000
cmatB.AB0.000.020.02
data.3x20.080.000.08
designMA000
designs.composite0.000.010.01
id.3x2000