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This page was generated on 2024-03-27 11:37:46 -0400 (Wed, 27 Mar 2024).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 22.04.3 LTS)x86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4667
palomino4Windows Server 2022 Datacenterx644.3.3 (2024-02-29 ucrt) -- "Angel Food Cake" 4403
merida1macOS 12.7.1 Montereyx86_644.3.3 (2024-02-29) -- "Angel Food Cake" 4426
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

Package 1159/2266HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MatrixGenerics 1.14.0  (landing page)
Peter Hickey
Snapshot Date: 2024-03-25 14:05:07 -0400 (Mon, 25 Mar 2024)
git_url: https://git.bioconductor.org/packages/MatrixGenerics
git_branch: RELEASE_3_18
git_last_commit: 9a52271
git_last_commit_date: 2023-10-24 11:20:56 -0400 (Tue, 24 Oct 2023)
nebbiolo2Linux (Ubuntu 22.04.3 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
merida1macOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson1macOS 13.6.1 Ventura / arm64see weekly results here

CHECK results for MatrixGenerics on merida1


To the developers/maintainers of the MatrixGenerics package:
- 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 Troubleshooting Build Report for more information.
- Use the following Renviron settings to reproduce errors and warnings.
- If 'R CMD check' started to fail recently on the Linux builder(s) over a missing dependency, add the missing dependency to 'Suggests:' in your DESCRIPTION file. See Renviron.bioc for more information.

raw results


Summary

Package: MatrixGenerics
Version: 1.14.0
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_1.14.0.tar.gz
StartedAt: 2024-03-26 04:39:59 -0400 (Tue, 26 Mar 2024)
EndedAt: 2024-03-26 04:40:58 -0400 (Tue, 26 Mar 2024)
EllapsedTime: 59.2 seconds
RetCode: 0
Status:   OK  
CheckDir: MatrixGenerics.Rcheck
Warnings: 0

Command output

##############################################################################
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###
### 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_1.14.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/Users/biocbuild/bbs-3.18-bioc/meat/MatrixGenerics.Rcheck’
* using R version 4.3.3 (2024-02-29)
* using platform: x86_64-apple-darwin20 (64-bit)
* R was compiled by
    Apple clang version 14.0.0 (clang-1400.0.29.202)
    GNU Fortran (GCC) 12.2.0
* running under: macOS Monterey 12.7.1
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MatrixGenerics/DESCRIPTION’ ... OK
* this is package ‘MatrixGenerics’ version ‘1.14.0’
* 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 ‘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-3.18-bioc/meat/MatrixGenerics.Rcheck/00check.log’
for details.



Installation output

MatrixGenerics.Rcheck/00install.out

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


* installing to library ‘/Library/Frameworks/R.framework/Versions/4.3-x86_64/Resources/library’
* installing *source* package ‘MatrixGenerics’ ...
** using staged installation
** R
** inst
** byte-compile and prepare package for lazy loading
Creating a new generic function for ‘rowAlls’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colAlls’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowAnyNAs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colAnyNAs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowAnys’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colAnys’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowAvgsPerColSet’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colAvgsPerRowSet’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCollapse’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCollapse’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCounts’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCounts’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCummaxs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCummaxs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCummins’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCummins’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCumprods’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCumprods’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowCumsums’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colCumsums’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowIQRDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colIQRDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowIQRs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colIQRs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowLogSumExps’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colLogSumExps’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMadDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMadDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMads’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMads’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMaxs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMaxs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMeans2’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMeans2’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMedians’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMedians’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowMins’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colMins’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowOrderStats’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colOrderStats’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowProds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colProds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowQuantiles’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colQuantiles’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowRanges’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colRanges’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowRanks’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colRanks’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowSdDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colSdDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowSds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colSds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowSums2’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colSums2’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowTabulates’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colTabulates’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowVarDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colVarDiffs’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowVars’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colVars’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowWeightedMads’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colWeightedMads’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowWeightedMeans’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colWeightedMeans’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowWeightedMedians’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colWeightedMedians’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowWeightedSds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colWeightedSds’ in package ‘MatrixGenerics’
Creating a new generic function for ‘rowWeightedVars’ in package ‘MatrixGenerics’
Creating a new generic function for ‘colWeightedVars’ in package ‘MatrixGenerics’
** 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 4.3.3 (2024-02-29) -- "Angel Food Cake"
Copyright (C) 2024 The R Foundation for Statistical Computing
Platform: x86_64-apple-darwin20 (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 382 ]
> 
> proc.time()
   user  system elapsed 
  6.297   0.501   6.966 

Example timings

MatrixGenerics.Rcheck/MatrixGenerics-Ex.timings

nameusersystemelapsed
rowAlls0.0050.0010.006
rowAnyNAs0.0030.0010.004
rowAnys0.0020.0010.004
rowAvgsPerColSet0.0040.0020.007
rowCollapse0.0020.0020.004
rowCounts0.0020.0010.004
rowCummaxs0.0020.0020.004
rowCummins0.0030.0020.004
rowCumprods0.0030.0020.004
rowCumsums0.0020.0010.004
rowDiffs0.0020.0010.005
rowIQRDiffs0.0060.0010.007
rowIQRs0.0060.0010.006
rowLogSumExps0.0020.0010.003
rowMadDiffs0.0050.0020.006
rowMads0.0020.0020.003
rowMaxs0.0020.0010.004
rowMeans0.0020.0010.003
rowMeans20.0010.0010.003
rowMedians0.0020.0010.003
rowMins0.0020.0010.003
rowOrderStats0.0020.0010.003
rowProds0.0020.0010.003
rowQuantiles0.0060.0020.008
rowRanges0.0020.0010.004
rowRanks0.0020.0010.004
rowSdDiffs0.0030.0010.004
rowSds0.0020.0010.003
rowSums0.0020.0010.003
rowSums20.0020.0010.003
rowTabulates0.0040.0020.006
rowVarDiffs0.0030.0010.005
rowVars0.0010.0010.003
rowWeightedMads0.0040.0010.004
rowWeightedMeans0.0020.0010.004
rowWeightedMedians0.0030.0010.003
rowWeightedSds0.0060.0010.008
rowWeightedVars0.0030.0010.003