Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-21 13:06:08 -0500 (Fri, 21 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" 4079
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4140
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 codelink on tokay2


To the developers/maintainers of the codelink package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/codelink.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 365/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
codelink 1.62.0  (landing page)
Diego Diez
Snapshot Date: 2022-01-20 01:55:04 -0500 (Thu, 20 Jan 2022)
git_url: https://git.bioconductor.org/packages/codelink
git_branch: RELEASE_3_14
git_last_commit: c6116c2
git_last_commit_date: 2021-10-26 11:49:04 -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: codelink
Version: 1.62.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:codelink.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings codelink_1.62.0.tar.gz
StartedAt: 2022-01-20 17:51:40 -0500 (Thu, 20 Jan 2022)
EndedAt: 2022-01-20 17:54:18 -0500 (Thu, 20 Jan 2022)
EllapsedTime: 158.1 seconds
RetCode: 0
Status:   OK  
CheckDir: codelink.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:codelink.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings codelink_1.62.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/codelink.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 'codelink/DESCRIPTION' ... OK
* this is package 'codelink' version '1.62.0'
* 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 'codelink' 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 installed files from 'inst/doc' ... 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: OK


Installation output

codelink.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/codelink_1.62.0.tar.gz && rm -rf codelink.buildbin-libdir && mkdir codelink.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=codelink.buildbin-libdir codelink_1.62.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL codelink_1.62.0.zip && rm codelink_1.62.0.tar.gz codelink_1.62.0.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 2410k    0 16225    0     0   137k      0  0:00:17 --:--:--  0:00:17  137k
100 2410k  100 2410k    0     0  3117k      0 --:--:-- --:--:-- --:--:-- 3117k

install for i386

* installing *source* package 'codelink' ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'codelink'
    finding HTML links ... done
    Codelink-class                          html  
    CodelinkSet-class                       html  
    finding level-2 HTML links ... done

    CodelinkSetUnique-class                 html  
    Nondocumented-objects                   html  
    SNR                                     html  
    arrayNew                                html  
    arraySize                               html  
    as.matrix.Codelink                      html  
    averageProbes                           html  
    bkgdCorrect                             html  
    codPlot                                 html  
    codelink.example                        html  
    codset                                  html  
    createWeights                           html  
    cutCV                                   html  
    decDetect                               html  
    dim.Codelink                            html  
    fc2Cond                                 html  
    imageCodelink                           html  
    logCodelink                             html  
    mergeArray                              html  
    na2false                                html  
    normalize                               html  
    plotCV                                  html  
    plotCorrelation                         html  
    plotDensities                           html  
    plotMA                                  html  
    printHead                               html  
    readCodelink                            html  
    readHeader                              html  
    readHeaderXLS                           html  
    reportCodelink                          html  
    selCV                                   html  
    writeCodelink                           html  
** building package indices
** installing vignettes
   'Codelink_Introduction.Rnw' using 'UTF-8' 
   'Codelink_Legacy.Rnw' using 'UTF-8' 
** 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 'codelink' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'codelink' as codelink_1.62.0.zip
* DONE (codelink)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'codelink' successfully unpacked and MD5 sums checked

Tests output


Example timings

codelink.Rcheck/examples_i386/codelink-Ex.timings

nameusersystemelapsed
Codelink-class000
CodelinkSet-class000
CodelinkSetUnique-class000
arrayNew000
as.matrix.Codelink000
averageProbes000
bkgdCorrect0.50.00.5
createWeights0.680.030.72
cutCV000
dim.Codelink000
imageCodelink000
logCodelink000
mergeArray000
na2false000
normalize0.780.000.78
plotCorrelation000
plotDensities000
plotMA000
readCodelink000
readHeader000
readHeaderXLS000
writeCodelink000

codelink.Rcheck/examples_x64/codelink-Ex.timings

nameusersystemelapsed
Codelink-class000
CodelinkSet-class000
CodelinkSetUnique-class000
arrayNew000
as.matrix.Codelink000
averageProbes000
bkgdCorrect0.480.020.50
createWeights1.140.011.16
cutCV000
dim.Codelink000
imageCodelink000
logCodelink000
mergeArray000
na2false000
normalize0.520.030.54
plotCorrelation000
plotDensities000
plotMA000
readCodelink000
readHeader000
readHeaderXLS000
writeCodelink000