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This page was generated on 2021-11-27 14:05:19 -0500 (Sat, 27 Nov 2021).

CHECK results for regsplice on riesling1

To the developers/maintainers of the regsplice package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/regsplice.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 1563/2068HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
regsplice 1.21.0  (landing page)
Lukas M. Weber
Snapshot Date: 2021-11-26 14:50:14 -0500 (Fri, 26 Nov 2021)
git_url: https://git.bioconductor.org/packages/regsplice
git_branch: master
git_last_commit: b3eb4c6
git_last_commit_date: 2021-10-26 12:31:14 -0500 (Tue, 26 Oct 2021)
nebbiolo1Linux (Ubuntu 20.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: regsplice
Version: 1.21.0
Command: D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:regsplice.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings regsplice_1.21.0.tar.gz
StartedAt: 2021-11-27 03:36:02 -0500 (Sat, 27 Nov 2021)
EndedAt: 2021-11-27 03:41:07 -0500 (Sat, 27 Nov 2021)
EllapsedTime: 305.0 seconds
RetCode: 0
Status:   OK  
CheckDir: regsplice.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:regsplice.install-out.txt --library=D:\biocbuild\bbs-3.15-bioc\R\library --no-vignettes --timings regsplice_1.21.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.15-bioc/meat/regsplice.Rcheck'
* using R Under development (unstable) (2021-11-21 r81221)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'regsplice/DESCRIPTION' ... OK
* this is package 'regsplice' version '1.21.0'
* 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 'regsplice' 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
* 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
LRTests        8.71   0.22    8.93
fitRegMultiple 8.00   0.00    8.00
summaryTable   7.05   0.03    7.08
regsplice      6.95   0.07    7.02
* checking for unstated dependencies in 'tests' ... OK
* checking tests ...
  Running 'testthat.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

regsplice.Rcheck/00install.out

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###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.165/BBS/3.15/bioc/src/contrib/regsplice_1.21.0.tar.gz && rm -rf regsplice.buildbin-libdir && mkdir regsplice.buildbin-libdir && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=regsplice.buildbin-libdir regsplice_1.21.0.tar.gz && D:\biocbuild\bbs-3.15-bioc\R\bin\R.exe CMD INSTALL regsplice_1.21.0.zip && rm regsplice_1.21.0.tar.gz regsplice_1.21.0.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 67107  100 67107    0     0   409k      0 --:--:-- --:--:-- --:--:--  409k
only one architecture so ignoring '--merge-multiarch'
* installing *source* package 'regsplice' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'regsplice'
    finding HTML links ... done
    LRTests                                 html  
    RegspliceData                           html  
    RegspliceResults                        html  
    createDesignMatrix                      html  
    filterLowCounts                         html  
    filterZeros                             html  
    fitRegMultiple                          html  
    initializeResults                       html  
    finding level-2 HTML links ... done

    regsplice                               html  
    runNormalization                        html  
    runVoom                                 html  
    summaryTable                            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
* MD5 sums
packaged installation of 'regsplice' as regsplice_1.21.0.zip
* DONE (regsplice)
* installing to library 'D:/biocbuild/bbs-3.15-bioc/R/library'
package 'regsplice' successfully unpacked and MD5 sums checked

Tests output

regsplice.Rcheck/tests/testthat.Rout


R Under development (unstable) (2021-11-21 r81221) -- "Unsuffered Consequences"
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.

> library(testthat)
> library(regsplice)
> 
> test_check("regsplice")
[ FAIL 0 | WARN 5 | SKIP 0 | PASS 90 ]
> 
> proc.time()
   user  system elapsed 
  14.84    0.50   15.32 

Example timings

regsplice.Rcheck/regsplice-Ex.timings

nameusersystemelapsed
LRTests8.710.228.93
RegspliceData0.140.000.14
RegspliceResults000
createDesignMatrix000
filterLowCounts0.050.000.05
filterZeros0.040.000.05
fitRegMultiple808
initializeResults0.110.000.10
regsplice6.950.077.02
runNormalization0.070.000.06
runVoom0.120.000.13
summaryTable7.050.037.08