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This page was generated on 2022-10-19 13:23:12 -0400 (Wed, 19 Oct 2022).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 20.04.5 LTS)x86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4386
palomino3Windows Server 2022 Datacenterx644.2.1 (2022-06-23 ucrt) -- "Funny-Looking Kid" 4138
merida1macOS 10.14.6 Mojavex86_644.2.1 (2022-06-23) -- "Funny-Looking Kid" 4205
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 MatrixGenerics on merida1


To the developers/maintainers of the MatrixGenerics package:
- Please allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/MatrixGenerics.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 1084/2140HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MatrixGenerics 1.8.1  (landing page)
Peter Hickey
Snapshot Date: 2022-10-18 13:55:19 -0400 (Tue, 18 Oct 2022)
git_url: https://git.bioconductor.org/packages/MatrixGenerics
git_branch: RELEASE_3_15
git_last_commit: a4a2108
git_last_commit_date: 2022-06-23 21:20:43 -0400 (Thu, 23 Jun 2022)
nebbiolo1Linux (Ubuntu 20.04.5 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino3Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
merida1macOS 10.14.6 Mojave / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published

Summary

Package: MatrixGenerics
Version: 1.8.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MatrixGenerics.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MatrixGenerics_1.8.1.tar.gz
StartedAt: 2022-10-19 04:14:00 -0400 (Wed, 19 Oct 2022)
EndedAt: 2022-10-19 04:14:49 -0400 (Wed, 19 Oct 2022)
EllapsedTime: 49.1 seconds
RetCode: 0
Status:   OK  
CheckDir: MatrixGenerics.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD check --install=check:MatrixGenerics.install-out.txt --library=/Library/Frameworks/R.framework/Resources/library --no-vignettes --timings MatrixGenerics_1.8.1.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.15-bioc/meat/MatrixGenerics.Rcheck’
* using R version 4.2.1 (2022-06-23)
* using platform: x86_64-apple-darwin17.0 (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MatrixGenerics/DESCRIPTION’ ... OK
* this is package ‘MatrixGenerics’ version ‘1.8.1’
* 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 ‘MatrixGenerics’ can be installed ... OK
* checking installed package size ... OK
* checking package 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 ... NOTE
Unexported objects imported by ':::' calls:
  ‘methods:::fromNextMethod’ ‘methods:::getGenericFromCall’
  See the note in ?`:::` about the use of this operator.
There are ::: calls to the package's namespace in its code. A package
  almost never needs to use ::: for its own objects:
  ‘.load_next_suggested_package_to_search’
* 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 examples ... OK
* checking for unstated dependencies in ‘tests’ ... OK
* checking tests ...
  Running ‘testthat.R’
 OK
* checking PDF version of manual ... OK
* DONE

Status: 1 NOTE
See
  ‘/Users/biocbuild/bbs-3.15-bioc/meat/MatrixGenerics.Rcheck/00check.log’
for details.



Installation output

MatrixGenerics.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.2/Resources/library’
* installing *source* package ‘MatrixGenerics’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
** help
*** installing help indices
** building package indices
** 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 (MatrixGenerics)

Tests output

MatrixGenerics.Rcheck/tests/testthat.Rout


R version 4.2.1 (2022-06-23) -- "Funny-Looking Kid"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin17.0 (64-bit)

R is free software and comes with ABSOLUTELY NO WARRANTY.
You are welcome to redistribute it under certain conditions.
Type 'license()' or 'licence()' for distribution details.

R is a collaborative project with many contributors.
Type 'contributors()' for more information and
'citation()' on how to cite R or R packages in publications.

Type 'demo()' for some demos, 'help()' for on-line help, or
'help.start()' for an HTML browser interface to help.
Type 'q()' to quit R.

> library(testthat)
> library(MatrixGenerics)
Loading required package: matrixStats

Attaching package: 'MatrixGenerics'

The following objects are masked from 'package:matrixStats':

    colAlls, colAnyNAs, colAnys, colAvgsPerRowSet, colCollapse,
    colCounts, colCummaxs, colCummins, colCumprods, colCumsums,
    colDiffs, colIQRDiffs, colIQRs, colLogSumExps, colMadDiffs,
    colMads, colMaxs, colMeans2, colMedians, colMins, colOrderStats,
    colProds, colQuantiles, colRanges, colRanks, colSdDiffs, colSds,
    colSums2, colTabulates, colVarDiffs, colVars, colWeightedMads,
    colWeightedMeans, colWeightedMedians, colWeightedSds,
    colWeightedVars, rowAlls, rowAnyNAs, rowAnys, rowAvgsPerColSet,
    rowCollapse, rowCounts, rowCummaxs, rowCummins, rowCumprods,
    rowCumsums, rowDiffs, rowIQRDiffs, rowIQRs, rowLogSumExps,
    rowMadDiffs, rowMads, rowMaxs, rowMeans2, rowMedians, rowMins,
    rowOrderStats, rowProds, rowQuantiles, rowRanges, rowRanks,
    rowSdDiffs, rowSds, rowSums2, rowTabulates, rowVarDiffs, rowVars,
    rowWeightedMads, rowWeightedMeans, rowWeightedMedians,
    rowWeightedSds, rowWeightedVars

> 
> test_check("MatrixGenerics")
[ FAIL 0 | WARN 0 | SKIP 0 | PASS 312 ]
> 
> proc.time()
   user  system elapsed 
  4.930   0.249   5.163 

Example timings

MatrixGenerics.Rcheck/MatrixGenerics-Ex.timings

nameusersystemelapsed
rowAlls0.0040.0000.005
rowAnyNAs0.0020.0000.002
rowAnys0.0020.0000.002
rowAvgsPerColSet0.0030.0010.003
rowCollapse0.0020.0010.002
rowCounts0.0020.0000.002
rowCummaxs0.0020.0000.003
rowCummins0.0010.0000.002
rowCumprods0.0020.0000.003
rowCumsums0.0020.0010.002
rowDiffs0.0020.0010.002
rowIQRDiffs0.0050.0010.006
rowIQRs0.0060.0010.006
rowLogSumExps0.0020.0000.002
rowMadDiffs0.0030.0000.004
rowMads0.0020.0010.002
rowMaxs0.0010.0010.003
rowMeans20.0020.0000.001
rowMedians0.0020.0000.002
rowMins0.0010.0010.002
rowOrderStats0.0020.0000.002
rowProds0.0010.0000.002
rowQuantiles0.0100.0010.010
rowRanges0.0020.0000.002
rowRanks0.0020.0010.002
rowSdDiffs0.0030.0010.004
rowSds0.0010.0000.002
rowSums20.0020.0000.002
rowTabulates0.0030.0010.004
rowVarDiffs0.0030.0010.003
rowVars0.0020.0000.002
rowWeightedMads0.0030.0000.004
rowWeightedMeans0.0030.0000.003
rowWeightedMedians0.0020.0010.002
rowWeightedSds0.0020.0000.002
rowWeightedVars0.0020.0010.002