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This page was generated on 2022-01-26 13:06:57 -0500 (Wed, 26 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4329
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
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 MPRAnalyze on tokay2


To the developers/maintainers of the MPRAnalyze package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MPRAnalyze.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 1208/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MPRAnalyze 1.12.0  (landing page)
Tal Ashuach
Snapshot Date: 2022-01-25 01:55:07 -0500 (Tue, 25 Jan 2022)
git_url: https://git.bioconductor.org/packages/MPRAnalyze
git_branch: RELEASE_3_14
git_last_commit: 490525a
git_last_commit_date: 2021-10-26 12:47:13 -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: MPRAnalyze
Version: 1.12.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:MPRAnalyze.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MPRAnalyze_1.12.0.tar.gz
StartedAt: 2022-01-25 23:19:05 -0500 (Tue, 25 Jan 2022)
EndedAt: 2022-01-25 23:23:25 -0500 (Tue, 25 Jan 2022)
EllapsedTime: 260.8 seconds
RetCode: 0
Status:   OK  
CheckDir: MPRAnalyze.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:MPRAnalyze.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings MPRAnalyze_1.12.0.tar.gz
###
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* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/MPRAnalyze.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 'MPRAnalyze/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'MPRAnalyze' version '1.12.0'
* 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 'MPRAnalyze' 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
getAlpha           8.66   0.08    8.74
analyzeComparative 7.08   0.19    7.26
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                   user system elapsed
getAlpha           9.33   0.00    9.32
analyzeComparative 9.09   0.05    9.14
* 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

MPRAnalyze.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/MPRAnalyze_1.12.0.tar.gz && rm -rf MPRAnalyze.buildbin-libdir && mkdir MPRAnalyze.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=MPRAnalyze.buildbin-libdir MPRAnalyze_1.12.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL MPRAnalyze_1.12.0.zip && rm MPRAnalyze_1.12.0.tar.gz MPRAnalyze_1.12.0.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 50753  100 50753    0     0   328k      0 --:--:-- --:--:-- --:--:--  330k

install for i386

* installing *source* package 'MPRAnalyze' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'MPRAnalyze'
    finding HTML links ... done
    ChrEpi                                  html  
    MpraObject                              html  
    analyzeComparative                      html  
    analyzeQuantification                   html  
    estimateDepthFactors                    html  
    extractModelParameters                  html  
    getAlpha                                html  
    getDistrParam                           html  
    getFits_DNA                             html  
    getFits_RNA                             html  
    setDepthFactors                         html  
    setModel                                html  
    simulateMPRA                            html  
    testCoefficient                         html  
    testEmpirical                           html  
    testLrt                                 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 'MPRAnalyze' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'MPRAnalyze' as MPRAnalyze_1.12.0.zip
* DONE (MPRAnalyze)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'MPRAnalyze' successfully unpacked and MD5 sums checked

Tests output


Example timings

MPRAnalyze.Rcheck/examples_i386/MPRAnalyze-Ex.timings

nameusersystemelapsed
MpraObject0.030.000.03
analyzeComparative7.080.197.26
analyzeQuantification2.470.032.50
estimateDepthFactors0.020.000.02
extractModelParameters1.180.001.18
getAlpha8.660.088.74
getDistrParam1.260.001.26
getFits_DNA1.250.001.25
getFits_RNA1.940.001.94
setDepthFactors000
setModel2.630.022.64
simulateMPRA0.200.010.22
testCoefficient4.130.004.13
testEmpirical2.820.002.82
testLrt4.530.004.53

MPRAnalyze.Rcheck/examples_x64/MPRAnalyze-Ex.timings

nameusersystemelapsed
MpraObject0.520.010.53
analyzeComparative9.090.059.14
analyzeQuantification2.870.012.89
estimateDepthFactors0.020.000.01
extractModelParameters1.840.001.85
getAlpha9.330.009.32
getDistrParam1.520.001.52
getFits_DNA1.580.001.58
getFits_RNA1.360.001.36
setDepthFactors000
setModel3.50.03.5
simulateMPRA0.120.000.12
testCoefficient4.590.024.61
testEmpirical3.330.003.33
testLrt4.410.004.42