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This page was generated on 2022-04-13 12:08:11 -0400 (Wed, 13 Apr 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.4 LTS)x86_644.1.3 (2022-03-10) -- "One Push-Up" 4324
tokay2Windows Server 2012 R2 Standardx644.1.3 (2022-03-10) -- "One Push-Up" 4077
machv2macOS 10.14.6 Mojavex86_644.1.3 (2022-03-10) -- "One Push-Up" 4137
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 ILoReg on machv2


To the developers/maintainers of the ILoReg package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/ILoReg.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? 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 920/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
ILoReg 1.4.0  (landing page)
Johannes Smolander
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/ILoReg
git_branch: RELEASE_3_14
git_last_commit: d0229aa
git_last_commit_date: 2021-10-26 13:01:20 -0400 (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: ILoReg
Version: 1.4.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ILoReg.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ILoReg_1.4.0.tar.gz
StartedAt: 2022-04-12 14:25:40 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 14:34:37 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 537.4 seconds
RetCode: 0
Status:   OK  
CheckDir: ILoReg.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:ILoReg.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings ILoReg_1.4.0.tar.gz
###
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/ILoReg.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘ILoReg/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘ILoReg’ 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 for sufficient/correct file permissions ... OK
* checking whether package ‘ILoReg’ 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 LazyData ... 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
FindAllGeneMarkers     23.619  1.867  25.521
SelectTopGenes         21.742  2.103  23.868
ClusteringScatterPlot  20.193  1.481  21.840
AnnotationScatterPlot  16.785  1.637  18.458
GeneScatterPlot        16.366  1.390  17.770
GeneHeatmap            15.720  1.745  17.482
CalcSilhInfo           15.076  1.505  16.611
FindGeneMarkers        12.443  1.521  13.973
RunUMAP                12.484  1.340  13.850
RunTSNE                11.620  1.486  13.118
SilhouetteCurve        10.815  1.758  12.582
VlnPlot                10.670  1.532  12.211
PCAElbowPlot           10.001  1.427  11.437
RenameAllClusters       9.746  1.643  11.405
HierarchicalClustering  9.810  1.559  11.378
SelectKClusters         9.704  1.476  11.185
RenameCluster           9.291  1.445  10.756
RunParallelICP          9.173  1.546  10.745
MergeClusters           9.187  1.407  10.601
RunPCA                  8.984  1.413  10.418
* 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

ILoReg.Rcheck/00install.out

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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD INSTALL ILoReg
###
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* installing to library ‘/Library/Frameworks/R.framework/Versions/4.1/Resources/library’
* installing *source* package ‘ILoReg’ ...
** 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 (ILoReg)

Tests output


Example timings

ILoReg.Rcheck/ILoReg-Ex.timings

nameusersystemelapsed
AnnotationScatterPlot16.785 1.63718.458
CalcSilhInfo15.076 1.50516.611
ClusteringScatterPlot20.193 1.48121.840
FindAllGeneMarkers23.619 1.86725.521
FindGeneMarkers12.443 1.52113.973
GeneHeatmap15.720 1.74517.482
GeneScatterPlot16.366 1.39017.770
HierarchicalClustering 9.810 1.55911.378
MergeClusters 9.187 1.40710.601
PCAElbowPlot10.001 1.42711.437
PrepareILoReg0.8500.0150.865
RenameAllClusters 9.746 1.64311.405
RenameCluster 9.291 1.44510.756
RunPCA 8.984 1.41310.418
RunParallelICP 9.173 1.54610.745
RunTSNE11.620 1.48613.118
RunUMAP12.484 1.34013.850
SelectKClusters 9.704 1.47611.185
SelectTopGenes21.742 2.10323.868
SilhouetteCurve10.815 1.75812.582
VlnPlot10.670 1.53212.211
pbmc3k_5000.0030.0010.006