Back to Multiple platform build/check report for BioC 3.13
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This page was generated on 2021-10-15 15:05:40 -0400 (Fri, 15 Oct 2021).

CHECK results for esetVis on nebbiolo1

To the developers/maintainers of the esetVis package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/esetVis.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 597/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
esetVis 1.18.0  (landing page)
Laure Cougnaud
Snapshot Date: 2021-10-14 04:50:12 -0400 (Thu, 14 Oct 2021)
git_url: https://git.bioconductor.org/packages/esetVis
git_branch: RELEASE_3_13
git_last_commit: 3e8a9aa
git_last_commit_date: 2021-05-19 12:21:14 -0400 (Wed, 19 May 2021)
nebbiolo1Linux (Ubuntu 20.04.2 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: esetVis
Version: 1.18.0
Command: /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:esetVis.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings esetVis_1.18.0.tar.gz
StartedAt: 2021-10-14 09:46:02 -0400 (Thu, 14 Oct 2021)
EndedAt: 2021-10-14 09:48:40 -0400 (Thu, 14 Oct 2021)
EllapsedTime: 158.2 seconds
RetCode: 0
Status:   OK  
CheckDir: esetVis.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD check --install=check:esetVis.install-out.txt --library=/home/biocbuild/bbs-3.13-bioc/R/library --no-vignettes --timings esetVis_1.18.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.13-bioc/meat/esetVis.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘esetVis/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘esetVis’ version ‘1.18.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘esetVis’ 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
* 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 ... NOTE
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘rowData’
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘colData’
getMethodsInputObjectEsetVis: no visible binding for global variable
  ‘assay’
getMethodsInputObjectEsetVis : <anonymous>: no visible global function
  definition for ‘colData’
getMethodsInputObjectEsetVis : <anonymous>: no visible global function
  definition for ‘rowData’
ggvisPlotEset: no visible global function definition for ‘:=’
ggvisPlotEset: no visible binding for global variable ‘fill’
ggvisPlotEset: no visible binding for global variable ‘shape’
ggvisPlotEset: no visible binding for global variable ‘size’
ggvisPlotEset: no visible binding for global variable ‘opacity’
ggvisPlotEset: no visible global function definition for ‘%>%’
ggvisPlotEset: no visible global function definition for
  ‘scale_ordinal’
ggvisPlotEset: no visible global function definition for ‘set_options’
Undefined global functions or variables:
  %>% := assay colData fill opacity rowData scale_ordinal set_options
  shape size
* 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 ... OK
Examples with CPU (user + system) or elapsed time > 5s
                     user system elapsed
getGeneSetsForPlot 51.646  3.644  55.293
esetLda             5.266  0.208   5.475
esetPlotWrapper     4.840  0.200   5.040
* 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: 1 NOTE
See
  ‘/home/biocbuild/bbs-3.13-bioc/meat/esetVis.Rcheck/00check.log’
for details.



Installation output

esetVis.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.13-bioc/R/bin/R CMD INSTALL esetVis
###
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* installing to library ‘/home/biocbuild/bbs-3.13-bioc/R/library’
* installing *source* package ‘esetVis’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** 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
* DONE (esetVis)

Tests output


Example timings

esetVis.Rcheck/esetVis-Ex.timings

nameusersystemelapsed
esetLda5.2660.2085.475
esetPlotWrapper4.840.205.04
esetSpectralMap3.5760.1283.704
esetTsne2.8630.0402.902
getGeneSetsForPlot51.646 3.64455.293