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This page was generated on 2021-10-18 12:04:45 -0400 (Mon, 18 Oct 2021).

CHECK results for SingleCellSignalR on merida1

To the developers/maintainers of the SingleCellSignalR package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/SingleCellSignalR.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 1786/2060HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
SingleCellSignalR 1.5.0  (landing page)
Jacques Colinge
Snapshot Date: 2021-10-17 14:50:03 -0400 (Sun, 17 Oct 2021)
git_url: https://git.bioconductor.org/packages/SingleCellSignalR
git_branch: master
git_last_commit: 2ed3832
git_last_commit_date: 2021-05-19 12:52:18 -0400 (Wed, 19 May 2021)
nebbiolo2Linux (Ubuntu 20.04.2 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
riesling1Windows Server 2019 Standard / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    WARNINGS    NA  

Summary

Package: SingleCellSignalR
Version: 1.5.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SingleCellSignalR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SingleCellSignalR_1.5.0.tar.gz
StartedAt: 2021-10-18 09:35:47 -0400 (Mon, 18 Oct 2021)
EndedAt: 2021-10-18 09:41:00 -0400 (Mon, 18 Oct 2021)
EllapsedTime: 312.8 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: SingleCellSignalR.Rcheck
Warnings: 1

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:SingleCellSignalR.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings SingleCellSignalR_1.5.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/SingleCellSignalR.Rcheck’
* using R version 4.1.1 Patched (2021-08-22 r80813)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘SingleCellSignalR/DESCRIPTION’ ... OK
* this is package ‘SingleCellSignalR’ version ‘1.5.0’
* 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 for sufficient/correct file permissions ... OK
* checking whether package ‘SingleCellSignalR’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is  6.2Mb
  sub-directories of 1Mb or more:
    data   5.9Mb
* 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 ... 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking LazyData ... WARNING
  LazyData DB of 5.9 MB without LazyDataCompression set
  See §1.1.6 of 'Writing R Extensions'
* checking data for ASCII and uncompressed saves ... OK
* checking files in ‘vignettes’ ... OK
* checking examples ... OK
Examples with CPU (user + system) or elapsed time > 5s
               user system elapsed
intra_network 14.48  0.283  14.787
* 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 WARNING, 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.14-bioc/meat/SingleCellSignalR.Rcheck/00check.log’
for details.



Installation output

SingleCellSignalR.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL SingleCellSignalR
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘SingleCellSignalR’ ...
** using staged installation
** R
** data
*** moving datasets to lazyload DB
** 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 (SingleCellSignalR)

Tests output


Example timings

SingleCellSignalR.Rcheck/SingleCellSignalR-Ex.timings

nameusersystemelapsed
LRscore0.0010.0000.000
cell_classifier0.0860.0040.090
cell_signaling0.0550.0040.060
cluster_analysis0.0020.0000.003
clustering1.0070.0131.022
data_prepare0.0380.0010.039
expression_plot0.0080.0000.009
expression_plot_20.0080.0000.009
inter_network0.0030.0000.003
intra_network14.480 0.28314.787
markers0.0090.0050.013
mv_interactions0.0020.0000.002
simplify_interactions0.0030.0000.003
visualize_interactions0.3700.0150.386