Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:06:28 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
Click on any hostname to see more info about the system (e.g. compilers)      (*) as reported by 'uname -p', except on Windows and Mac OS X

CHECK results for DMRScan on tokay2


To the developers/maintainers of the DMRScan package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/DMRScan.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? for more information.
- Make sure to use the following settings in order to reproduce any error or warning you see on this page.

raw results

Package 528/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
DMRScan 1.16.0  (landing page)
Christian M Page
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/DMRScan
git_branch: RELEASE_3_14
git_last_commit: 347754a
git_last_commit_date: 2021-10-26 12:32:33 -0400 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.4 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: DMRScan
Version: 1.16.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DMRScan.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings DMRScan_1.16.0.tar.gz
StartedAt: 2022-04-12 18:47:33 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 18:59:51 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 737.7 seconds
RetCode: 0
Status:   OK  
CheckDir: DMRScan.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:DMRScan.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings DMRScan_1.16.0.tar.gz
###
##############################################################################
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/DMRScan.Rcheck'
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'DMRScan/DESCRIPTION' ... OK
* this is package 'DMRScan' version '1.16.0'
* 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 'DMRScan' can be installed ... OK
* checking installed package size ... NOTE
  installed size is  5.1Mb
  sub-directories of 1Mb or more:
    data   4.9Mb
* 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... OK
* checking data for ASCII and uncompressed saves ... 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
DMRScan_package       91.36   0.37   91.73
DMRScan_slidingWindow 91.17   0.07   91.25
makeCpGregions        70.47   0.06   70.53
makeCpGgenes          51.82   0.04   51.88
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                       user system elapsed
DMRScan_slidingWindow 91.45   0.05   91.50
DMRScan_package       90.96   0.14   91.09
makeCpGregions        68.53   0.05   68.61
makeCpGgenes          50.56   0.07   50.64
* 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: 1 NOTE
See
  'C:/Users/biocbuild/bbs-3.14-bioc/meat/DMRScan.Rcheck/00check.log'
for details.



Installation output

DMRScan.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/DMRScan_1.16.0.tar.gz && rm -rf DMRScan.buildbin-libdir && mkdir DMRScan.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=DMRScan.buildbin-libdir DMRScan_1.16.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL DMRScan_1.16.0.zip && rm DMRScan_1.16.0.tar.gz DMRScan_1.16.0.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
  2 3202k    2 78109    0     0   289k      0  0:00:11 --:--:--  0:00:11  288k
 30 3202k   30  992k    0     0   781k      0  0:00:04  0:00:01  0:00:03  780k
 85 3202k   85 2744k    0     0  1227k      0  0:00:02  0:00:02 --:--:-- 1226k
100 3202k  100 3202k    0     0  1321k      0  0:00:02  0:00:02 --:--:-- 1321k

install for i386

* installing *source* package 'DMRScan' ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'DMRScan'
    finding HTML links ... done
    DMRScan.methylationData                 html  
    DMRScan.phenotypes                      html  
    DMRScan_package                         html  
    finding level-2 HTML links ... done

    DMRScan_slidingWindow                   html  
    Rt-methods                              html  
    St-methods                              html  
    estimateThreshold                       html  
    makeCpGgenes                            html  
    makeCpGregions                          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 'DMRScan' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'DMRScan' as DMRScan_1.16.0.zip
* DONE (DMRScan)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'DMRScan' successfully unpacked and MD5 sums checked

Tests output


Example timings

DMRScan.Rcheck/examples_i386/DMRScan-Ex.timings

nameusersystemelapsed
DMRScan.methylationData0.470.000.46
DMRScan.phenotypes0.000.020.02
DMRScan_package91.36 0.3791.73
DMRScan_slidingWindow91.17 0.0791.25
Rt-methods000
St-methods000
estimateThreshold000
makeCpGgenes51.82 0.0451.88
makeCpGregions70.47 0.0670.53

DMRScan.Rcheck/examples_x64/DMRScan-Ex.timings

nameusersystemelapsed
DMRScan.methylationData0.520.010.53
DMRScan.phenotypes000
DMRScan_package90.96 0.1491.09
DMRScan_slidingWindow91.45 0.0591.50
Rt-methods000
St-methods000
estimateThreshold000
makeCpGgenes50.56 0.0750.64
makeCpGregions68.53 0.0568.61