Back to Multiple platform build/check report for BioC 3.14
[A]BCDEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2022-01-19 13:06:13 -0500 (Wed, 19 Jan 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.2 (2021-11-01) -- "Bird Hippie" 4328
tokay2Windows Server 2012 R2 Standardx644.1.2 (2021-11-01) -- "Bird Hippie" 4077
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4138
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 ASpli on tokay2


To the developers/maintainers of the ASpli package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ASpli.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 90/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ASpli 2.4.0  (landing page)
Estefania Mancini
Snapshot Date: 2022-01-18 01:55:07 -0500 (Tue, 18 Jan 2022)
git_url: https://git.bioconductor.org/packages/ASpli
git_branch: RELEASE_3_14
git_last_commit: 9dad6f1
git_last_commit_date: 2021-10-26 12:29:18 -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: ASpli
Version: 2.4.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ASpli.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings ASpli_2.4.0.tar.gz
StartedAt: 2022-01-18 15:36:43 -0500 (Tue, 18 Jan 2022)
EndedAt: 2022-01-18 16:04:27 -0500 (Tue, 18 Jan 2022)
EllapsedTime: 1663.0 seconds
RetCode: 0
Status:   OK  
CheckDir: ASpli.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:ASpli.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings ASpli_2.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/ASpli.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 'ASpli/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'ASpli' version '2.4.0'
* 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
* 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 installed files from 'inst/doc' ... 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
ASpli-package           113.66   1.21  114.94
jDUreport                59.89   0.01   59.99
exportIntegratedSignals  59.21   0.22   60.83
jCounts-methods          58.88   0.02   58.89
integrateSignals         57.91   0.00   57.90
exportSplicingReports    57.33   0.17   58.83
splicingReport           56.28   0.04   56.33
gbDUreport-method        49.28   0.01   49.30
gbCounts                 47.42   0.04   47.45
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
ASpli-package           128.29   0.20  128.62
exportIntegratedSignals  69.64   0.18   77.23
jCounts-methods          69.09   0.07   69.18
jDUreport                68.83   0.01   68.85
splicingReport           66.58   0.00   66.58
exportSplicingReports    65.76   0.23   71.31
integrateSignals         64.32   0.01   64.34
gbDUreport-method        59.70   0.03   59.95
gbCounts                 58.66   0.02   58.68
* 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

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/ASpli_2.4.0.tar.gz && rm -rf ASpli.buildbin-libdir && mkdir ASpli.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=ASpli.buildbin-libdir ASpli_2.4.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL ASpli_2.4.0.zip && rm ASpli_2.4.0.tar.gz ASpli_2.4.0.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
 72 4893k   72 3525k    0     0  4862k      0  0:00:01 --:--:--  0:00:01 4862k
100 4893k  100 4893k    0     0  5268k      0 --:--:-- --:--:-- --:--:-- 5266k

install for i386

* installing *source* package 'ASpli' ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'ASpli'
    finding HTML links ... done
    ASpli-deprecated                        html  
    ASpli-package                           html  
    ASpliAS-class                           html  
    ASpliCounts-class                       html  
    ASpliCounts                             html  
    ASpliDU-class                           html  
    ASpliFeatures-class                     html  
    ASpliIntegratedSignals-class            html  
    ASpliJDU-class                          html  
    ASpliSplicingReport-class               html  
    DUreport                                html  
    finding level-2 HTML links ... done

    DUreport.norm                           html  
    DUreport.offset                         html  
    DUreportBinSplice-method                html  
    acc_AS                                  html  
    acc_DU                                  html  
    acc_JDU                                 html  
    acc_MergedReport                        html  
    acc_counts                              html  
    acc_features                            html  
    acc_is                                  html  
    binGenome-methods                       html  
    binGenome                               html  
    containsJunctions-function              html  
    example_data                            html  
    exportIntegratedSignals                 html  
    exportSplicingReports                   html  
    filterDU-method                         html  
    filterSignals                           html  
    gbCounts                                html  
    gbDUreport-method                       html  
    getConditions-function                  html  
    integrateSignals                        html  
    jCounts-methods                         html  
    jDUreport                               html  
    junctionDUreport                        html  
    loadBAM                                 html  
    mergeBinDUAS-method                     html  
    plotBins                                html  
    plotGenomicRegions                      html  
    rds                                     html  
    show-methods                            html  
    splicingReport                          html  
    subset-methods                          html  
    write-methods                           html  
    write                                   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 'ASpli' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'ASpli' as ASpli_2.4.0.zip
* DONE (ASpli)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'ASpli' successfully unpacked and MD5 sums checked

Tests output


Example timings

ASpli.Rcheck/examples_i386/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package113.66 1.21114.94
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS000
acc_DU000
acc_counts000
acc_features0.220.000.22
binGenome3.780.013.80
containsJunctions-function000
example_data000
exportIntegratedSignals59.21 0.2260.83
exportSplicingReports57.33 0.1758.83
filterDU-method000
filterSignals000
gbCounts47.42 0.0447.45
gbDUreport-method49.28 0.0149.30
getConditions-function000
integrateSignals57.91 0.0057.90
jCounts-methods58.88 0.0258.89
jDUreport59.89 0.0159.99
junctionDUreport000
loadBAM000
mergeBinDUAS-method000
plotBins000
plotGenomicRegions000
rds000
splicingReport56.28 0.0456.33
subset-methods000

ASpli.Rcheck/examples_x64/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package128.29 0.20128.62
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS000
acc_DU000
acc_counts000
acc_features0.240.000.23
binGenome4.310.004.32
containsJunctions-function000
example_data000
exportIntegratedSignals69.64 0.1877.23
exportSplicingReports65.76 0.2371.31
filterDU-method000
filterSignals000
gbCounts58.66 0.0258.68
gbDUreport-method59.70 0.0359.95
getConditions-function000
integrateSignals64.32 0.0164.34
jCounts-methods69.09 0.0769.18
jDUreport68.83 0.0168.85
junctionDUreport000
loadBAM000
mergeBinDUAS-method000
plotBins000
plotGenomicRegions000
rds000
splicingReport66.58 0.0066.58
subset-methods000