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This page was generated on 2022-01-19 13:07:07 -0500 (Wed, 19 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4328
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4077
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4138
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 plgem on tokay2


To the developers/maintainers of the plgem package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/plgem.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here 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 1427/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
plgem 1.66.0  (landing page)
Norman Pavelka
Snapshot Date: 2022-01-18 01:55:07 -0500 (Tue, 18 Jan 2022)
git_url: https://git.bioconductor.org/packages/plgem
git_branch: RELEASE_3_14
git_last_commit: d7f821f
git_last_commit_date: 2021-10-26 11:47:50 -0500 (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: plgem
Version: 1.66.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:plgem.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings plgem_1.66.0.tar.gz
StartedAt: 2022-01-19 00:16:40 -0500 (Wed, 19 Jan 2022)
EndedAt: 2022-01-19 00:18:10 -0500 (Wed, 19 Jan 2022)
EllapsedTime: 89.5 seconds
RetCode: 0
Status:   OK  
CheckDir: plgem.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:plgem.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings plgem_1.66.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/plgem.Rcheck'
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'plgem/DESCRIPTION' ... OK
* this is package 'plgem' version '1.66.0'
* 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 'plgem' 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 contents of 'data' directory ... OK
* checking data for non-ASCII characters ... 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
run.plgem 4.93   0.19    5.11
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
             user system elapsed
plgem.pValue 4.88   0.25    5.12
* 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

plgem.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/plgem_1.66.0.tar.gz && rm -rf plgem.buildbin-libdir && mkdir plgem.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=plgem.buildbin-libdir plgem_1.66.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL plgem_1.66.0.zip && rm plgem_1.66.0.tar.gz plgem_1.66.0.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
  0     0    0     0    0     0      0      0 --:--:--  0:00:01 --:--:--     0
  2  160k    2  3839    0     0   1992      0  0:01:22  0:00:01  0:01:21  1992
100  160k  100  160k    0     0  80854      0  0:00:02  0:00:02 --:--:-- 80905

install for i386

* installing *source* package 'plgem' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'plgem'
    finding HTML links ... done
    LPSeset                                 html  
    plgem.deg                               html  
    plgem.fit                               html  
    plgem.obsStn                            html  
    plgem.pValue                            html  
    plgem.resampledStn                      html  
    plgem.write.summary                     html  
    run.plgem                               html  
    setGpar                                 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 'plgem' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'plgem' as plgem_1.66.0.zip
* DONE (plgem)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'plgem' successfully unpacked and MD5 sums checked

Tests output


Example timings

plgem.Rcheck/examples_i386/plgem-Ex.timings

nameusersystemelapsed
LPSeset0.080.010.09
plgem.deg4.750.224.97
plgem.fit1.420.031.47
plgem.obsStn0.550.000.55
plgem.pValue4.580.164.73
plgem.resampledStn2.820.253.08
plgem.write.summary000
run.plgem4.930.195.11
setGpar000

plgem.Rcheck/examples_x64/plgem-Ex.timings

nameusersystemelapsed
LPSeset0.060.010.08
plgem.deg4.530.304.83
plgem.fit1.210.051.25
plgem.obsStn0.500.010.51
plgem.pValue4.880.255.12
plgem.resampledStn3.390.163.55
plgem.write.summary000
run.plgem4.370.204.58
setGpar000