Back to Multiple platform build/check report for BioC 3.14
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This page was generated on 2022-04-13 12:08:45 -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 scHOT on machv2


To the developers/maintainers of the scHOT package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/scHOT.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 1726/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
scHOT 1.6.0  (landing page)
Shila Ghazanfar
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/scHOT
git_branch: RELEASE_3_14
git_last_commit: daee27c
git_last_commit_date: 2021-10-26 12:58:45 -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: scHOT
Version: 1.6.0
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:scHOT.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings scHOT_1.6.0.tar.gz
StartedAt: 2022-04-12 18:11:12 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 18:24:30 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 798.0 seconds
RetCode: 0
Status:   OK  
CheckDir: scHOT.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:scHOT.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings scHOT_1.6.0.tar.gz
###
##############################################################################
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* using log directory ‘/Users/biocbuild/bbs-3.14-bioc/meat/scHOT.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 ‘scHOT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scHOT’ 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 ‘scHOT’ 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
scHOT_performPermutationTest 175.521  0.964 179.531
scHOT                        167.518  1.089 169.272
scHOT_estimatePvalues        160.804  0.952 162.710
* 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

scHOT.Rcheck/00install.out

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


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

Tests output


Example timings

scHOT.Rcheck/scHOT-Ex.timings

nameusersystemelapsed
params-set0.8710.0090.882
plotColouredExpression2.5790.0952.711
plotHigherOrderSequence4.1110.0634.223
positionColData-set0.4900.0020.495
positionType-set0.5070.0030.511
scHOT167.518 1.089169.272
scHOT_addTestingScaffold0.4230.0030.425
scHOT_buildFromMatrix0.4680.0020.470
scHOT_buildFromSCE1.0600.0161.307
scHOT_calculateGlobalHigherOrderFunction0.6570.0050.665
scHOT_calculateHigherOrderTestStatistics2.4710.0392.511
scHOT_estimatePvalues160.804 0.952162.710
scHOT_output-set0.4660.0020.469
scHOT_performPermutationTest175.521 0.964179.531
scHOT_setPermutationScaffold0.7260.0040.730
scHOT_setWeightMatrix0.5500.0040.555
scHOT_stripOutput0.4510.0030.453
spatialWeightMatrix0.0080.0000.008
testingScaffold-set0.5500.0030.553
thin0.0150.0010.015
trajectoryWeightMatrix0.0030.0010.004
weightMatrix-set0.8000.0170.816
weightedPearson0.0000.0010.001
weightedSpearman0.0000.0010.001
weightedVariance0.0010.0000.001
weightedZIKendall0.0010.0000.001
weightedZISpearman0.0010.0010.001