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This page was generated on 2023-04-12 11:05:26 -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 BrainSABER on palomino4


To the developers/maintainers of the BrainSABER package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/BrainSABER.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 221/2183HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
BrainSABER 1.8.0  (landing page)
USD Biomedical Engineering
Snapshot Date: 2023-04-10 14:00:05 -0400 (Mon, 10 Apr 2023)
git_url: https://git.bioconductor.org/packages/BrainSABER
git_branch: RELEASE_3_16
git_last_commit: 263677f
git_last_commit_date: 2022-11-01 11:22:10 -0400 (Tue, 01 Nov 2022)
nebbiolo2Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    WARNINGS  UNNEEDED, same version is already published
palomino4Windows Server 2022 Datacenter / x64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published
lconwaymacOS 12.5.1 Monterey / x86_64  OK    OK    WARNINGS    OK  UNNEEDED, same version is already published

Summary

Package: BrainSABER
Version: 1.8.0
Command: F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:BrainSABER.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings BrainSABER_1.8.0.tar.gz
StartedAt: 2023-04-10 23:31:04 -0400 (Mon, 10 Apr 2023)
EndedAt: 2023-04-10 23:34:14 -0400 (Mon, 10 Apr 2023)
EllapsedTime: 189.1 seconds
RetCode: 0
Status:   WARNINGS  
CheckDir: BrainSABER.Rcheck
Warnings: 1

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD check --no-multiarch --install=check:BrainSABER.install-out.txt --library=F:\biocbuild\bbs-3.16-bioc\R\library --no-vignettes --timings BrainSABER_1.8.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory 'F:/biocbuild/bbs-3.16-bioc/meat/BrainSABER.Rcheck'
* using R version 4.2.3 (2023-03-15 ucrt)
* using platform: x86_64-w64-mingw32 (64-bit)
* using session charset: UTF-8
* using option '--no-vignettes'
* checking for file 'BrainSABER/DESCRIPTION' ... OK
* checking extension type ... Package
* this is package 'BrainSABER' version '1.8.0'
* 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 whether package 'BrainSABER' can be installed ... WARNING
Found the following significant warnings:
  Warning: Package 'BrainSABER' is deprecated and will be removed from
See 'F:/biocbuild/bbs-3.16-bioc/meat/BrainSABER.Rcheck/00install.out' for details.
* 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 files in 'vignettes' ... OK
* checking examples ... OK
* 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 WARNING
See
  'F:/biocbuild/bbs-3.16-bioc/meat/BrainSABER.Rcheck/00check.log'
for details.



Installation output

BrainSABER.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   F:\biocbuild\bbs-3.16-bioc\R\bin\R.exe CMD INSTALL BrainSABER
###
##############################################################################
##############################################################################


* installing to library 'F:/biocbuild/bbs-3.16-bioc/R/library'
* installing *source* package 'BrainSABER' ...
** using staged installation
** R
** 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
Warning: Package 'BrainSABER' is deprecated and will be removed from
  Bioconductor version 3.17
** testing if installed package can be loaded from final location
Warning: Package 'BrainSABER' is deprecated and will be removed from
  Bioconductor version 3.17
** testing if installed package keeps a record of temporary installation path
* DONE (BrainSABER)

Tests output


Example timings

BrainSABER.Rcheck/BrainSABER-Ex.timings

nameusersystemelapsed
CellScabbard-methods0.500.080.58
CellScabbard0.420.040.47
buildAIBSARNA0.020.000.02
getExampleVector0.080.000.08
getExternalVector0.050.000.04
getRelevantGenes0.350.000.35
getSimDataFrame0.410.000.43
getSimMatrix0.330.000.33
getSimScores0.310.000.31
getTrimmedExternalSet0.280.000.28
getUNDmatrix0.30.00.3
runShinyBrainSABER000