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This page was generated on 2021-09-17 15:06:03 -0400 (Fri, 17 Sep 2021).

CHECK results for DExMA on tokay2

To the developers/maintainers of the DExMA package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DExMA.git to
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raw results

Package 490/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DExMA 1.0.2  (landing page)
Juan Antonio Villatoro-GarcĂ­a
Snapshot Date: 2021-09-16 04:50:11 -0400 (Thu, 16 Sep 2021)
git_url: https://git.bioconductor.org/packages/DExMA
git_branch: RELEASE_3_13
git_last_commit: 2f24d41
git_last_commit_date: 2021-07-26 06:58:06 -0400 (Mon, 26 Jul 2021)
nebbiolo1Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
tokay2Windows Server 2012 R2 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
machv2macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: DExMA
Version: 1.0.2
Command: C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DExMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings DExMA_1.0.2.tar.gz
StartedAt: 2021-09-16 22:16:23 -0400 (Thu, 16 Sep 2021)
EndedAt: 2021-09-16 22:20:08 -0400 (Thu, 16 Sep 2021)
EllapsedTime: 224.5 seconds
RetCode: 0
Status:   OK  
CheckDir: DExMA.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DExMA.install-out.txt --library=C:\Users\biocbuild\bbs-3.13-bioc\R\library --no-vignettes --timings DExMA_1.0.2.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.13-bioc/meat/DExMA.Rcheck'
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DExMA/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'DExMA' version '1.0.2'
* package encoding: UTF-8
* 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 'DExMA' 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 ... 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
allSameID 5.75   0.37    6.29
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
allSameID 5.92   0.34    6.26
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
** running tests for arch 'i386' ...
  Running 'runTests.R'
 OK
** running tests for arch 'x64' ...
  Running 'runTests.R'
 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
* DONE

Status: OK


Installation output

DExMA.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.13/bioc/src/contrib/DExMA_1.0.2.tar.gz && rm -rf DExMA.buildbin-libdir && mkdir DExMA.buildbin-libdir && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DExMA.buildbin-libdir DExMA_1.0.2.tar.gz && C:\Users\biocbuild\bbs-3.13-bioc\R\bin\R.exe CMD INSTALL DExMA_1.0.2.zip && rm DExMA_1.0.2.tar.gz DExMA_1.0.2.zip
###
##############################################################################
##############################################################################


  % 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 28716  100 28716    0     0   239k      0 --:--:-- --:--:-- --:--:--  241k

install for i386

* installing *source* package 'DExMA' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'DExMA'
    finding HTML links ... done
    allSameID                               html  
    batchRemove                             html  
    calculateES                             html  
    createObjectMA                          html  
    dataLog                                 html  
    downloadGEOData                         html  
    elementObjectMA                         html  
    heterogeneityTest                       html  
    makeHeatmap                             html  
    metaAnalysisDE                          html  
    pvalueIndAnalysis                       html  
    seeCov                                  html  
** building package indices
** installing vignettes
** testing if installed package can be loaded from temporary location
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path

install for x64

* installing *source* package 'DExMA' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DExMA' as DExMA_1.0.2.zip
* DONE (DExMA)
* installing to library 'C:/Users/biocbuild/bbs-3.13-bioc/R/library'
package 'DExMA' successfully unpacked and MD5 sums checked

Tests output

DExMA.Rcheck/tests_i386/runTests.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: i386-w64-mingw32/i386 (32-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> BiocGenerics:::testPackage("DExMA")
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)


RUNIT TEST PROTOCOL -- Thu Sep 16 22:19:53 2021 
*********************************************** 
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
DExMA RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   6.71    0.57    7.28 

DExMA.Rcheck/tests_x64/runTests.Rout


R version 4.1.1 (2021-08-10) -- "Kick Things"
Copyright (C) 2021 The R Foundation for Statistical Computing
Platform: x86_64-w64-mingw32/x64 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> BiocGenerics:::testPackage("DExMA")
Setting options('download.file.method.GEOquery'='auto')
Setting options('GEOquery.inmemory.gpl'=FALSE)


RUNIT TEST PROTOCOL -- Thu Sep 16 22:20:00 2021 
*********************************************** 
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 

 
1 Test Suite : 
DExMA RUnit Tests - 0 test functions, 0 errors, 0 failures
Number of test functions: 0 
Number of errors: 0 
Number of failures: 0 
> 
> proc.time()
   user  system elapsed 
   7.21    0.31    7.51 

Example timings

DExMA.Rcheck/examples_i386/DExMA-Ex.timings

nameusersystemelapsed
allSameID5.750.376.29
batchRemove0.070.050.13
calculateES0.020.000.01
createObjectMA0.020.010.03
dataLog0.010.000.02
downloadGEOData000
elementObjectMA000
heterogeneityTest0.030.000.03
makeHeatmap0.110.020.13
metaAnalysisDE0.020.010.03
pvalueIndAnalysis0.010.040.05
seeCov0.050.010.06

DExMA.Rcheck/examples_x64/DExMA-Ex.timings

nameusersystemelapsed
allSameID5.920.346.26
batchRemove0.090.020.11
calculateES0.010.000.01
createObjectMA0.020.020.03
dataLog0.010.000.02
downloadGEOData000
elementObjectMA0.020.000.02
heterogeneityTest0.030.000.03
makeHeatmap0.140.000.14
metaAnalysisDE0.000.020.02
pvalueIndAnalysis0.030.010.04
seeCov0.070.000.07