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This page was generated on 2022-04-13 12:05:33 -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 MatrixGenerics on nebbiolo2


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 1057/2083HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
MatrixGenerics 1.6.0  (landing page)
Peter Hickey
Snapshot Date: 2022-04-12 01:55:07 -0400 (Tue, 12 Apr 2022)
git_url: https://git.bioconductor.org/packages/MatrixGenerics
git_branch: RELEASE_3_14
git_last_commit: 4588a60
git_last_commit_date: 2021-10-26 12:58:35 -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: MatrixGenerics
Version: 1.6.0
Command: /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:MatrixGenerics.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings MatrixGenerics_1.6.0.tar.gz
StartedAt: 2022-04-12 08:04:34 -0400 (Tue, 12 Apr 2022)
EndedAt: 2022-04-12 08:04:56 -0400 (Tue, 12 Apr 2022)
EllapsedTime: 21.9 seconds
RetCode: 0
Status:   OK  
CheckDir: MatrixGenerics.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD check --install=check:MatrixGenerics.install-out.txt --library=/home/biocbuild/bbs-3.14-bioc/R/library --no-vignettes --timings MatrixGenerics_1.6.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.14-bioc/meat/MatrixGenerics.Rcheck’
* using R version 4.1.3 (2022-03-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘MatrixGenerics/DESCRIPTION’ ... OK
* this is package ‘MatrixGenerics’ 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 ‘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 ... NOTE
colAvgsPerRowSet,ANY: no visible binding for global variable ‘x’
colLogSumExps,ANY: no visible binding for global variable ‘x’
rowAvgsPerColSet,ANY: no visible binding for global variable ‘x’
rowLogSumExps,ANY: no visible binding for global variable ‘x’
Undefined global functions or variables:
  x
* 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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.14-bioc/meat/MatrixGenerics.Rcheck/00check.log’
for details.



Installation output

MatrixGenerics.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.14-bioc/R/bin/R CMD INSTALL MatrixGenerics
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.14-bioc/R/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 4.1.3 (2022-03-10) -- "One Push-Up"
Copyright (C) 2022 The R Foundation for Statistical Computing
Platform: x86_64-pc-linux-gnu (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 310 ]
> 
> proc.time()
   user  system elapsed 
  1.177   0.088   1.250 

Example timings

MatrixGenerics.Rcheck/MatrixGenerics-Ex.timings

nameusersystemelapsed
rowAlls0.0020.0010.002
rowAnyNAs0.0010.0000.001
rowAnys0.0010.0000.001
rowAvgsPerColSet0.0020.0000.002
rowCollapse0.0010.0000.001
rowCounts0.0010.0000.001
rowCummaxs0.0000.0000.001
rowCummins0.0000.0010.001
rowCumprods0.0000.0010.001
rowCumsums0.0010.0010.001
rowDiffs0.0010.0000.001
rowIQRDiffs0.0030.0000.003
rowIQRs0.0030.0000.003
rowLogSumExps0.0010.0000.001
rowMadDiffs0.0020.0000.003
rowMads0.0010.0000.001
rowMaxs0.0010.0000.001
rowMeans20.0010.0000.001
rowMedians0.0010.0000.000
rowMins0.0010.0000.001
rowOrderStats0.0010.0000.001
rowProds0.0010.0000.001
rowQuantiles0.0030.0000.003
rowRanges0.0010.0000.001
rowRanks0.0010.0000.001
rowSdDiffs0.0020.0000.001
rowSds0.0010.0000.001
rowSums20.0010.0000.001
rowTabulates0.0020.0000.002
rowVarDiffs0.0010.0000.002
rowVars0.0010.0000.001
rowWeightedMads0.0020.0000.001
rowWeightedMeans0.0010.0000.001
rowWeightedMedians0.0010.0000.001
rowWeightedSds0.0010.0000.001
rowWeightedVars0.0010.0000.002