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This page was generated on 2023-04-12 11:05:18 -0400 (Wed, 12 Apr 2023).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 20.04.5 LTS)x86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4502
palomino4Windows Server 2022 Datacenterx644.2.3 (2023-03-15 ucrt) -- "Shortstop Beagle" 4282
lconwaymacOS 12.5.1 Montereyx86_644.2.3 (2023-03-15) -- "Shortstop Beagle" 4310
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 nebbiolo2


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 1801/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
scHOT 1.10.0  (landing page)
Shila Ghazanfar
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/scHOT
git_branch: RELEASE_3_16
git_last_commit: 5082c3d
git_last_commit_date: 2022-11-01 11:21:48 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: scHOT
Version: 1.10.0
Command: /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:scHOT.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings scHOT_1.10.0.tar.gz
StartedAt: 2023-04-10 23:46:17 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 23:57:05 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 648.0 seconds
RetCode: 0
Status:   OK  
CheckDir: scHOT.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD check --install=check:scHOT.install-out.txt --library=/home/biocbuild/bbs-3.16-bioc/R/site-library --timings scHOT_1.10.0.tar.gz
###
##############################################################################
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* using log directory ‘/home/biocbuild/bbs-3.16-bioc/meat/scHOT.Rcheck’
* using R version 4.2.3 (2023-03-15)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* checking for file ‘scHOT/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘scHOT’ version ‘1.10.0’
* 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 loading without being on the library search path ... 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                        70.758  0.727  71.500
scHOT_estimatePvalues        68.317  0.256  68.589
scHOT_performPermutationTest 68.280  0.256  68.573
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes in ‘inst/doc’ ... OK
* checking running R code from vignettes ...
  ‘scHOT.Rmd’ using ‘UTF-8’... OK
 NONE
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

scHOT.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.16-bioc/R/bin/R CMD INSTALL scHOT
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.16-bioc/R/site-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-set0.9140.0320.945
plotColouredExpression0.8830.0880.971
plotHigherOrderSequence1.7970.0321.830
positionColData-set0.1580.0000.159
positionType-set0.1900.0000.191
scHOT70.758 0.72771.500
scHOT_addTestingScaffold0.1570.0040.161
scHOT_buildFromMatrix0.1440.0080.152
scHOT_buildFromSCE0.4240.0280.452
scHOT_calculateGlobalHigherOrderFunction0.1990.0000.199
scHOT_calculateHigherOrderTestStatistics0.890.000.89
scHOT_estimatePvalues68.317 0.25668.589
scHOT_output-set0.1750.0000.175
scHOT_performPermutationTest68.280 0.25668.573
scHOT_setPermutationScaffold0.2290.0000.228
scHOT_setWeightMatrix0.1980.0160.214
scHOT_stripOutput0.1770.0040.181
spatialWeightMatrix0.0050.0000.004
testingScaffold-set0.2080.0080.216
thin0.0100.0030.013
trajectoryWeightMatrix0.0050.0000.005
weightMatrix-set0.4010.0080.408
weightedPearson0.0000.0000.001
weightedSpearman000
weightedVariance000
weightedZIKendall0.0010.0000.001
weightedZISpearman000