Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-17 13:05:54 -0500 (Mon, 17 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: 2022-01-16 01:55:05 -0500 (Sun, 16 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: 2022-01-16 16:53:38 -0500 (Sun, 16 Jan 2022)
EndedAt: 2022-01-16 17:21:18 -0500 (Sun, 16 Jan 2022)
EllapsedTime: 1660.2 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           105.55   0.85  112.87
exportIntegratedSignals  59.82   0.13   60.83
integrateSignals         59.44   0.01   59.46
exportSplicingReports    58.35   0.26   59.89
jDUreport                54.08   0.05   54.31
jCounts-methods          53.86   0.00   53.87
splicingReport           51.97   0.05   52.01
gbCounts                 50.19   0.02   50.22
gbDUreport-method        47.20   0.02   47.28
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
                          user system elapsed
ASpli-package           142.29   0.08  142.39
exportSplicingReports    74.78   0.15   75.43
exportIntegratedSignals  70.86   0.28   73.42
jCounts-methods          68.74   0.00   68.74
integrateSignals         67.70   0.03   67.73
jDUreport                65.43   0.07   65.50
splicingReport           65.28   0.01   65.30
gbDUreport-method        57.73   0.04   57.80
gbCounts                 56.86   0.03   56.89
* 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
100 4893k  100 4893k    0     0  9306k      0 --:--:-- --:--:-- --:--:-- 9320k

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-package105.55 0.85112.87
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS000
acc_DU000
acc_counts000
acc_features0.190.010.20
binGenome3.590.003.59
containsJunctions-function000
example_data000
exportIntegratedSignals59.82 0.1360.83
exportSplicingReports58.35 0.2659.89
filterDU-method000
filterSignals000
gbCounts50.19 0.0250.22
gbDUreport-method47.20 0.0247.28
getConditions-function000
integrateSignals59.44 0.0159.46
jCounts-methods53.86 0.0053.87
jDUreport54.08 0.0554.31
junctionDUreport000
loadBAM000
mergeBinDUAS-method000
plotBins000
plotGenomicRegions000
rds000
splicingReport51.97 0.0552.01
subset-methods000

ASpli.Rcheck/examples_x64/ASpli-Ex.timings

nameusersystemelapsed
ASpli-package142.29 0.08142.39
DUreport000
DUreport.norm000
DUreport.offset000
DUreportBinSplice-method000
acc_AS000
acc_DU000
acc_counts000
acc_features0.220.000.22
binGenome4.440.004.44
containsJunctions-function000
example_data000
exportIntegratedSignals70.86 0.2873.42
exportSplicingReports74.78 0.1575.43
filterDU-method000
filterSignals000
gbCounts56.86 0.0356.89
gbDUreport-method57.73 0.0457.80
getConditions-function000
integrateSignals67.70 0.0367.73
jCounts-methods68.74 0.0068.74
jDUreport65.43 0.0765.50
junctionDUreport000
loadBAM000
mergeBinDUAS-method000
plotBins000
plotGenomicRegions000
rds000
splicingReport65.28 0.0165.30
subset-methods000