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This page was generated on 2021-09-13 15:06:52 -0400 (Mon, 13 Sep 2021).

CHECK results for CiteFuse on machv2

To the developers/maintainers of the CiteFuse package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/CiteFuse.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 316/2041HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
CiteFuse 1.4.0  (landing page)
Yingxin Lin
Snapshot Date: 2021-09-12 04:50:10 -0400 (Sun, 12 Sep 2021)
git_url: https://git.bioconductor.org/packages/CiteFuse
git_branch: RELEASE_3_13
git_last_commit: aefd68a
git_last_commit_date: 2021-05-19 12:51:31 -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: CiteFuse
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CiteFuse.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CiteFuse_1.4.0.tar.gz
StartedAt: 2021-09-12 17:22:35 -0400 (Sun, 12 Sep 2021)
EndedAt: 2021-09-12 17:28:38 -0400 (Sun, 12 Sep 2021)
EllapsedTime: 363.3 seconds
RetCode: 0
Status:   OK  
CheckDir: CiteFuse.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD check --install=check:CiteFuse.install-out.txt --library=/Library/Frameworks/R.framework/Versions/Current/Resources/library --no-vignettes --timings CiteFuse_1.4.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.13-bioc/meat/CiteFuse.Rcheck’
* using R version 4.1.1 (2021-08-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘CiteFuse/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘CiteFuse’ 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘CiteFuse’ 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 ... 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 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
DEgenesCross     7.756  0.053   7.814
plotHTO          6.400  0.034   6.441
DEbubblePlot     6.037  0.151   6.191
DEcomparisonPlot 5.461  0.053   5.519
* 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
  ‘/Users/biocbuild/bbs-3.13-bioc/meat/CiteFuse.Rcheck/00check.log’
for details.



Installation output

CiteFuse.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Versions/Current/Resources/bin/R CMD INSTALL CiteFuse
###
##############################################################################
##############################################################################


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘CiteFuse’ ...
** using staged installation
** R
** data
** 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 (CiteFuse)

Tests output


Example timings

CiteFuse.Rcheck/CiteFuse-Ex.timings

nameusersystemelapsed
CiteFuse2.4690.0862.557
DEbubblePlot6.0370.1516.191
DEcomparisonPlot5.4610.0535.519
DEgenes2.9500.0272.979
DEgenesCross7.7560.0537.814
crossSampleDoublets3.1350.0243.160
geneADTnetwork2.8720.0282.905
igraphClustering1.4000.0501.451
importanceADT2.3640.0412.408
ligandReceptorTest3.6460.0443.692
normaliseExprs2.0510.0162.069
plotHTO6.4000.0346.441
preprocessing1.2580.0051.264
readFrom10X000
reducedDimSNF2.0350.0392.077
selectDEgenes2.9130.0162.932
spectralClustering1.1180.0261.144
visImportance3.5280.0313.563
visLigandReceptor3.0110.0253.039
visualiseDim3.1590.0513.213
visualiseExprs4.0560.0424.102
visualiseExprsList2.3320.0142.348
visualiseKNN1.3010.0181.322
withinSampleDoublets2.6010.0202.622