Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-01-26 13:06:32 -0500 (Wed, 26 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" 4080
machv2macOS 10.14.6 Mojavex86_644.1.2 (2021-11-01) -- "Bird Hippie" 4141
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 escape on tokay2


To the developers/maintainers of the escape package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/escape.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 605/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
escape 1.4.0  (landing page)
Nick Borcherding
Snapshot Date: 2022-01-25 01:55:07 -0500 (Tue, 25 Jan 2022)
git_url: https://git.bioconductor.org/packages/escape
git_branch: RELEASE_3_14
git_last_commit: b3d13db
git_last_commit_date: 2021-10-26 13:01:14 -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: escape
Version: 1.4.0
Command: C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD check --force-multiarch --install=check:escape.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings escape_1.4.0.tar.gz
StartedAt: 2022-01-25 19:20:16 -0500 (Tue, 25 Jan 2022)
EndedAt: 2022-01-25 19:25:57 -0500 (Tue, 25 Jan 2022)
EllapsedTime: 340.9 seconds
RetCode: 0
Status:   OK  
CheckDir: escape.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:escape.install-out.txt --library=C:\Users\biocbuild\bbs-3.14-bioc\R\library --no-vignettes --timings escape_1.4.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'C:/Users/biocbuild/bbs-3.14-bioc/meat/escape.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 'escape/DESCRIPTION' ... OK
* this is package 'escape' version '1.4.0'
* package encoding: UTF-8
* 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 'escape' 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 files in 'vignettes' ... OK
* checking examples ...
** running examples for arch 'i386' ... OK
Examples with CPU (user + system) or elapsed time > 5s
         user system elapsed
enrichIt 6.61    0.3   25.92
** running examples for arch 'x64' ... OK
Examples with CPU (user + system) or elapsed time > 5s
         user system elapsed
enrichIt 7.16   0.16   28.45
* 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

escape.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   C:\cygwin\bin\curl.exe -O http://155.52.207.166/BBS/3.14/bioc/src/contrib/escape_1.4.0.tar.gz && rm -rf escape.buildbin-libdir && mkdir escape.buildbin-libdir && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL --merge-multiarch --build --library=escape.buildbin-libdir escape_1.4.0.tar.gz && C:\Users\biocbuild\bbs-3.14-bioc\R\bin\R.exe CMD INSTALL escape_1.4.0.zip && rm escape_1.4.0.tar.gz escape_1.4.0.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 14181  100 14181    0     0   120k      0 --:--:-- --:--:-- --:--:--  121k

install for i386

* installing *source* package 'escape' ...
** using staged installation
** R
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
  converting help for package 'escape'
    finding HTML links ... done
    enrichIt                                html  
    getGeneSets                             html  
    getSignificance                         html  
    masterPCAPlot                           html  
    pcaEnrichment                           html  
    performPCA                              html  
    ridgeEnrichment                         html  
    splitEnrichment                         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 'escape' ...
** testing if installed package can be loaded
* MD5 sums
packaged installation of 'escape' as escape_1.4.0.zip
* DONE (escape)
* installing to library 'C:/Users/biocbuild/bbs-3.14-bioc/R/library'
package 'escape' successfully unpacked and MD5 sums checked

Tests output


Example timings

escape.Rcheck/examples_i386/escape-Ex.timings

nameusersystemelapsed
enrichIt 6.61 0.3025.92
getGeneSets0.620.110.74
getSignificance0.130.080.50
masterPCAPlot0.460.100.60
pcaEnrichment0.290.210.53
performPCA0.120.120.28
ridgeEnrichment0.560.050.64
splitEnrichment0.690.190.90

escape.Rcheck/examples_x64/escape-Ex.timings

nameusersystemelapsed
enrichIt 7.16 0.1628.45
getGeneSets0.690.050.73
getSignificance0.130.010.41
masterPCAPlot0.450.050.54
pcaEnrichment0.360.050.49
performPCA0.200.000.23
ridgeEnrichment0.460.000.49
splitEnrichment0.700.010.75