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This page was generated on 2021-11-26 15:05:03 -0500 (Fri, 26 Nov 2021).

CHECK results for scClassify on nebbiolo2

To the developers/maintainers of the scClassify package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scClassify.git to
reflect on this report. See How and When does the builder pull? When will my changes propagate? here for more information.
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raw results

Package 1716/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
scClassify 1.6.0  (landing page)
Yingxin Lin
Snapshot Date: 2021-11-25 04:15:05 -0500 (Thu, 25 Nov 2021)
git_url: https://git.bioconductor.org/packages/scClassify
git_branch: RELEASE_3_14
git_last_commit: cf2735b
git_last_commit_date: 2021-10-26 12:59:09 -0500 (Tue, 26 Oct 2021)
nebbiolo2Linux (Ubuntu 20.04.3 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: scClassify
Version: 1.6.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:scClassify.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings scClassify_1.6.0.tar.gz
StartedAt: 2021-11-25 11:06:01 -0500 (Thu, 25 Nov 2021)
EndedAt: 2021-11-25 11:11:06 -0500 (Thu, 25 Nov 2021)
EllapsedTime: 304.7 seconds
RetCode: 0
Status:   OK  
CheckDir: scClassify.Rcheck
Warnings: 0

Command output

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### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:scClassify.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings scClassify_1.6.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/scClassify.Rcheck’
* using R version 4.1.2 (2021-11-01)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘scClassify/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scClassify’ version ‘1.6.0’
* 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 ‘scClassify’ 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
runSampleCal            75.249  4.026  75.351
predict_scClassifyJoint 16.952  1.687  14.775
predict_scClassify      10.316  2.633  10.387
scClassify              10.537  1.335   9.793
* 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

scClassify.Rcheck/00install.out

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### Running command:
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###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL scClassify
###
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* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/library’
* installing *source* package ‘scClassify’ ...
** using staged installation
** R
** data
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
*** copying figures
** 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 (scClassify)

Tests output


Example timings

scClassify.Rcheck/scClassify-Ex.timings

nameusersystemelapsed
cellTypeTrain0.0880.0040.093
cellTypeTree0.0850.0020.088
features0.0930.0080.101
getN0.1240.0070.130
learningCurve0.0720.0080.080
model0.5150.1440.660
modelweights0.0810.0000.082
name0.0820.0000.082
plotCellTypeTree1.1140.0161.130
predict_scClassify10.316 2.63310.387
predict_scClassifyJoint16.952 1.68714.775
runHOPACH0.6130.0320.645
runSampleCal75.249 4.02675.351
scClassify10.537 1.335 9.793
scClassifyTrainModelList0.1540.0040.158
train_scClassify1.1180.1201.238