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CHECK report for optimalFlowData on nebbiolo1

This page was generated on 2021-01-14 14:10:34 -0500 (Thu, 14 Jan 2021).

TO THE DEVELOPERS/MAINTAINERS OF THE optimalFlowData PACKAGE: Please make sure to use the following settings in order to reproduce any error or warning you see on this page.
Package 261/398HostnameOS / ArchINSTALLBUILDCHECK
optimalFlowData 1.2.0
Hristo Inouzhe
Snapshot Date: 2021-01-14 09:00:17 -0500 (Thu, 14 Jan 2021)
URL: https://git.bioconductor.org/packages/optimalFlowData
Branch: RELEASE_3_12
Last Commit: 930e8b9
Last Changed Date: 2020-10-27 10:31:47 -0500 (Tue, 27 Oct 2020)
malbec1 Linux (Ubuntu 18.04.5 LTS) / x86_64  OK  OK  OK UNNEEDED, same version exists in internal repository
nebbiolo1 Linux (Ubuntu 20.04.1 LTS) / x86_64  OK  OK [ OK ]

Summary

Package: optimalFlowData
Version: 1.2.0
Command: /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:optimalFlowData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings optimalFlowData_1.2.0.tar.gz
StartedAt: 2021-01-14 11:08:33 -0500 (Thu, 14 Jan 2021)
EndedAt: 2021-01-14 11:09:30 -0500 (Thu, 14 Jan 2021)
EllapsedTime: 57.3 seconds
RetCode: 0
Status:  OK 
CheckDir: optimalFlowData.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD check --install=check:optimalFlowData.install-out.txt --library=/home/biocbuild/bbs-3.12-bioc/R/library --no-vignettes --timings optimalFlowData_1.2.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.12-data-experiment/meat/optimalFlowData.Rcheck’
* using R version 4.0.3 (2020-10-10)
* using platform: x86_64-pc-linux-gnu (64-bit)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘optimalFlowData/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘optimalFlowData’ version ‘1.2.0’
* 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 ... NOTE
Found the following hidden files and directories:
  .git_fetch_output.txt
  .git_merge_output.txt
These were most likely included in error. See section ‘Package
structure’ in the ‘Writing R Extensions’ manual.
* checking for portable file names ... OK
* checking for sufficient/correct file permissions ... OK
* checking whether package ‘optimalFlowData’ can be installed ... OK
* checking installed package size ... NOTE
  installed size is 101.1Mb
  sub-directories of 1Mb or more:
    data  100.9Mb
* 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 contents of ‘data’ directory ... OK
* checking data for non-ASCII characters ... OK
* checking data for ASCII and uncompressed saves ... 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: 2 NOTEs
See
  ‘/home/biocbuild/bbs-3.12-data-experiment/meat/optimalFlowData.Rcheck/00check.log’
for details.



Installation output

optimalFlowData.Rcheck/00install.out

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### Running command:
###
###   /home/biocbuild/bbs-3.12-bioc/R/bin/R CMD INSTALL optimalFlowData
###
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* installing to library ‘/home/biocbuild/bbs-3.12-bioc/R/library’
* installing *source* package ‘optimalFlowData’ ...
** 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 (optimalFlowData)

Tests output


Example timings

optimalFlowData.Rcheck/optimalFlowData-Ex.timings

nameusersystemelapsed
Cytometry10.0290.0080.036
Cytometry100.0270.0040.030
Cytometry110.0230.0080.031
Cytometry120.0230.0080.030
Cytometry130.0320.0040.035
Cytometry140.0270.0200.046
Cytometry150.0130.0040.017
Cytometry160.0170.0000.017
Cytometry170.0560.0160.072
Cytometry180.0450.0160.060
Cytometry190.0270.0040.030
Cytometry20.0510.0080.059
Cytometry200.0470.0040.051
Cytometry210.0590.0040.064
Cytometry220.0250.0040.029
Cytometry230.0180.0080.026
Cytometry240.0190.0080.028
Cytometry250.0250.0000.026
Cytometry260.0300.0040.034
Cytometry270.0810.0120.093
Cytometry280.0750.0120.087
Cytometry290.0670.0040.071
Cytometry30.0140.0000.014
Cytometry300.0620.0000.062
Cytometry310.0570.0040.059
Cytometry320.0660.0040.070
Cytometry330.0380.0000.038
Cytometry340.1090.0040.112
Cytometry350.0520.0000.051
Cytometry360.0130.0040.015
Cytometry370.0140.0000.014
Cytometry380.0140.0000.014
Cytometry390.0140.0000.015
Cytometry40.0160.0000.016
Cytometry400.0360.0000.035
Cytometry50.0160.0000.016
Cytometry60.0140.0000.014
Cytometry70.0140.0000.015
Cytometry80.0170.0000.017
Cytometry90.0220.0040.026
buildDatabase0.4980.0320.530
cytometry.diagnosis0.0020.0000.002
noise.types0.0020.0000.002