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This page was generated on 2021-10-20 12:05:07 -0400 (Wed, 20 Oct 2021).

CHECK results for erccdashboard on riesling1

To the developers/maintainers of the erccdashboard package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/erccdashboard.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 597/2072HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
erccdashboard 1.27.0  (landing page)
Sarah Munro
Snapshot Date: 2021-10-19 14:50:04 -0400 (Tue, 19 Oct 2021)
git_url: https://git.bioconductor.org/packages/erccdashboard
git_branch: master
git_last_commit: f194d76
git_last_commit_date: 2021-05-19 12:06:57 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: erccdashboard
Version: 1.27.0
Command: D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:erccdashboard.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings erccdashboard_1.27.0.tar.gz
StartedAt: 2021-10-20 01:17:55 -0400 (Wed, 20 Oct 2021)
EndedAt: 2021-10-20 01:20:45 -0400 (Wed, 20 Oct 2021)
EllapsedTime: 170.1 seconds
RetCode: 0
Status:   OK  
CheckDir: erccdashboard.Rcheck
Warnings: 0

Command output

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###
### Running command:
###
###   D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:erccdashboard.install-out.txt --library=D:\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings erccdashboard_1.27.0.tar.gz
###
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* using log directory 'D:/biocbuild/bbs-3.14-bioc/meat/erccdashboard.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 'erccdashboard/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'erccdashboard' version '1.27.0'
* 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 'erccdashboard' 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 ... NOTE
dynRangePlot: no visible binding for global variable 'value'
dynRangePlot: no visible binding for global variable 'Rep'
saveERCCPlots: no visible global function definition for 'par'
testDECount: no visible binding for global variable 'Atrend'
testDECount: no visible binding for global variable 'Dispersion'
testDECount: no visible binding for global variable 'Ratio'
Undefined global functions or variables:
  Atrend Dispersion Ratio Rep par value
Consider adding
  importFrom("graphics", "par")
to your NAMESPACE file.
* 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
** running examples for arch 'x64' ... 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: 1 NOTE
See
  'D:/biocbuild/bbs-3.14-bioc/meat/erccdashboard.Rcheck/00check.log'
for details.



Installation output

erccdashboard.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/erccdashboard_1.27.0.tar.gz && rm -rf erccdashboard.buildbin-libdir && mkdir erccdashboard.buildbin-libdir && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=erccdashboard.buildbin-libdir erccdashboard_1.27.0.tar.gz && D:\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL erccdashboard_1.27.0.zip && rm erccdashboard_1.27.0.tar.gz erccdashboard_1.27.0.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
100 1125k  100 1125k    0     0  2502k      0 --:--:-- --:--:-- --:--:-- 2502k

install for i386

* installing *source* package 'erccdashboard' ...
** 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 'erccdashboard'
    finding HTML links ... done
    ERCC                                    html  
    ERCCDef                                 html  
    ERCCMix1and2                            html  
    MET.CTL.countDat                        html  
    MET.CTL.totalReads                      html  
    SEQC.Example                            html  
    UHRR.HBRR.arrayDat                      html  
    UHRR.HBRR.countDat                      html  
    UHRR.HBRR.totalReads                    html  
    annotLODR                               html  
    dynRangePlot                            html  
    erccROC                                 html  
    estLODR                                 html  
    est_r_m                                 html  
    geneExprTest                            html  
    initDat                                 html  
    maSignal                                html  
    runDashboard                            html  
    saveERCCPlots                           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 'erccdashboard' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'erccdashboard' as erccdashboard_1.27.0.zip
* DONE (erccdashboard)
* installing to library 'D:/biocbuild/bbs-3.14-bioc/R/library'
package 'erccdashboard' successfully unpacked and MD5 sums checked

Tests output


Example timings

erccdashboard.Rcheck/examples_i386/erccdashboard-Ex.timings

nameusersystemelapsed
ERCC000
SEQC.Example000
annotLODR0.750.020.76
dynRangePlot0.620.000.63
erccROC0.640.000.64
estLODR3.440.003.44
est_r_m0.380.000.37
geneExprTest0.400.000.41
initDat0.070.010.08
maSignal1.090.001.09
runDashboard000
saveERCCPlots000

erccdashboard.Rcheck/examples_x64/erccdashboard-Ex.timings

nameusersystemelapsed
ERCC000
SEQC.Example000
annotLODR0.750.000.75
dynRangePlot0.640.000.64
erccROC0.620.020.64
estLODR3.550.013.56
est_r_m0.370.020.39
geneExprTest0.390.020.41
initDat0.080.000.08
maSignal1.130.001.12
runDashboard000
saveERCCPlots000