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CHECK report for ASpli on tokay1

This page was generated on 2018-04-12 13:28:30 -0400 (Thu, 12 Apr 2018).

Package 75/1472HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ASpli 1.4.0
Estefania Mancini
Snapshot Date: 2018-04-11 16:45:18 -0400 (Wed, 11 Apr 2018)
URL: https://git.bioconductor.org/packages/ASpli
Branch: RELEASE_3_6
Last Commit: b176d95
Last Changed Date: 2017-10-30 12:41:21 -0400 (Mon, 30 Oct 2017)
malbec1 Linux (Ubuntu 16.04.1 LTS) / x86_64  NotNeeded  OK  OK UNNEEDED, same version exists in internal repository
tokay1 Windows Server 2012 R2 Standard / x64  NotNeeded  OK [ OK ] OK UNNEEDED, same version exists in internal repository
veracruz1 OS X 10.11.6 El Capitan / x86_64  NotNeeded  OK  OK  OK UNNEEDED, same version exists in internal repository

Summary

Package: ASpli
Version: 1.4.0
Command: rm -rf ASpli.buildbin-libdir ASpli.Rcheck && mkdir ASpli.buildbin-libdir ASpli.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ASpli.buildbin-libdir ASpli_1.4.0.tar.gz >ASpli.Rcheck\00install.out 2>&1 && cp ASpli.Rcheck\00install.out ASpli-install.out && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ASpli.buildbin-libdir --install="check:ASpli-install.out" --force-multiarch --no-vignettes --timings ASpli_1.4.0.tar.gz
StartedAt: 2018-04-11 22:17:11 -0400 (Wed, 11 Apr 2018)
EndedAt: 2018-04-11 22:26:08 -0400 (Wed, 11 Apr 2018)
EllapsedTime: 537.4 seconds
RetCode: 0
Status:  OK  
CheckDir: ASpli.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   rm -rf ASpli.buildbin-libdir ASpli.Rcheck && mkdir ASpli.buildbin-libdir ASpli.Rcheck && C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD INSTALL --build --merge-multiarch --library=ASpli.buildbin-libdir ASpli_1.4.0.tar.gz >ASpli.Rcheck\00install.out 2>&1 && cp ASpli.Rcheck\00install.out ASpli-install.out  &&  C:\Users\biocbuild\bbs-3.6-bioc\R\bin\R.exe CMD check --library=ASpli.buildbin-libdir --install="check:ASpli-install.out" --force-multiarch --no-vignettes --timings ASpli_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.6-bioc/meat/ASpli.Rcheck'
* using R version 3.4.4 (2018-03-15)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: ISO8859-1
* using option '--no-vignettes'
* checking for file 'ASpli/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ASpli' version '1.4.0'
* 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 'ASpli' 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
** checking loading without being on the library search path ... 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 loading without being on the library search path ... 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 installed files from 'inst/doc' ... OK
* checking files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
plotGenomicRegions  13.13   0.11   13.24
ASpli-package       10.19   0.24   10.44
plotBins             7.92   0.11    8.03
AsDiscover-methods   6.02   0.04    6.06
mergeBinDUAS-method  5.70   0.02    5.72
** running examples for arch 'x64' ... OK
Examples with CPU or elapsed time > 5s
                     user system elapsed
plotGenomicRegions  14.61   0.03   14.70
ASpli-package       10.52   0.06   10.58
plotBins             8.52   0.03    8.54
AsDiscover-methods   7.26   0.05    7.31
mergeBinDUAS-method  6.95   0.02    6.97
* 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

ASpli.Rcheck/00install.out


install for i386

* installing *source* package 'ASpli' ...
** R
** inst
** preparing package for lazy loading
** help
*** installing help indices
  converting help for package 'ASpli'
    finding HTML links ... done
    ASpli-package                           html  
    ASpliAS-class                           html  
    ASpliCounts-class                       html  
    ASpliCounts                             html  
    ASpliDU-class                           html  
    ASpliFeatures-class                     html  
    AsDiscover-methods                      html  
    DUreport                                html  
    finding level-2 HTML links ... done

    DUreportBinSplice-method                html  
    acc_AS                                  html  
    acc_DU                                  html  
    acc_counts                              html  
    acc_features                            html  
    binGenome-methods                       html  
    binGenome                               html  
    containsJunctions-function              html  
    example_data                            html  
    filterDU-method                         html  
    getConditions-function                  html  
    junctionDUreport                        html  
    loadBAM                                 html  
    mergeBinDUAS-method                     html  
    plotBins                                html  
    plotGenomicRegions                      html  
    rds                                     html  
    readCounts                              html  
    show-methods                            html  
    subset-methods                          html  
    write-methods                           html  
    write                                   html  
** building package indices
** installing vignettes
** testing if installed package can be loaded
In R CMD INSTALL

install for x64

* installing *source* package 'ASpli' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ASpli' as ASpli_1.4.0.zip
* DONE (ASpli)
In R CMD INSTALL
In R CMD INSTALL

Tests output


Example timings

ASpli.Rcheck/examples_i386/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package10.19 0.2410.44
AsDiscover-methods6.020.046.06
DUreport3.170.003.17
DUreportBinSplice-method3.300.053.34
acc_AS0.010.000.02
acc_DU0.020.000.01
acc_counts0.010.000.02
acc_features0.250.000.25
binGenome1.890.001.89
containsJunctions-function3.710.023.72
example_data0.400.010.42
filterDU-method3.460.023.47
getConditions-function000
junctionDUreport3.790.013.81
loadBAM0.130.000.12
mergeBinDUAS-method5.700.025.72
plotBins7.920.118.03
plotGenomicRegions13.13 0.1113.24
rds3.150.003.15
readCounts3.310.013.32
subset-methods3.870.023.89

ASpli.Rcheck/examples_x64/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package10.52 0.0610.58
AsDiscover-methods7.260.057.31
DUreport3.750.033.78
DUreportBinSplice-method4.260.014.28
acc_AS0.010.000.01
acc_DU0.020.000.02
acc_counts0.020.000.01
acc_features0.290.000.30
binGenome1.940.021.95
containsJunctions-function3.830.013.85
example_data0.420.020.43
filterDU-method3.870.023.89
getConditions-function0.020.000.02
junctionDUreport4.140.014.16
loadBAM0.120.000.13
mergeBinDUAS-method6.950.026.97
plotBins8.520.038.54
plotGenomicRegions14.61 0.0314.70
rds3.560.023.58
readCounts3.580.023.60
subset-methods4.540.014.56