Back to Multiple platform build/check report for BioC 3.21:   simplified   long
AB[C]DEFGHIJKLMNOPQRSTUVWXYZ

This page was generated on 2025-03-27 11:47 -0400 (Thu, 27 Mar 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.1 LTS)x86_64R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences" 4783
palomino7Windows Server 2022 Datacenterx64R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences" 4552
lconwaymacOS 12.7.1 Montereyx86_64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4581
kjohnson3macOS 13.7.1 Venturaarm64R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences" 4533
kunpeng2Linux (openEuler 24.03 LTS)aarch64R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences" 4463
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 484/2315HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cyanoFilter 1.15.0  (landing page)
Oluwafemi Olusoji
Snapshot Date: 2025-03-26 13:40 -0400 (Wed, 26 Mar 2025)
git_url: https://git.bioconductor.org/packages/cyanoFilter
git_branch: devel
git_last_commit: aa13f66
git_last_commit_date: 2024-10-29 10:58:03 -0400 (Tue, 29 Oct 2024)
nebbiolo1Linux (Ubuntu 24.04.1 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
palomino7Windows Server 2022 Datacenter / x64  OK    OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.1 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published
kunpeng2Linux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for cyanoFilter on kunpeng2

To the developers/maintainers of the cyanoFilter package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cyanoFilter.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.
- See Martin Grigorov's blog post for how to debug Linux ARM64 related issues on a x86_64 host.

raw results


Summary

Package: cyanoFilter
Version: 1.15.0
Command: /home/biocbuild/R/R/bin/R CMD check --install=check:cyanoFilter.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings cyanoFilter_1.15.0.tar.gz
StartedAt: 2025-03-27 05:51:49 -0000 (Thu, 27 Mar 2025)
EndedAt: 2025-03-27 05:53:45 -0000 (Thu, 27 Mar 2025)
EllapsedTime: 116.0 seconds
RetCode: 0
Status:   OK  
CheckDir: cyanoFilter.Rcheck
Warnings: 0

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD check --install=check:cyanoFilter.install-out.txt --library=/home/biocbuild/R/R/site-library --no-vignettes --timings cyanoFilter_1.15.0.tar.gz
###
##############################################################################
##############################################################################


* using log directory ‘/home/biocbuild/bbs-3.21-bioc/meat/cyanoFilter.Rcheck’
* using R Under development (unstable) (2025-02-19 r87757)
* using platform: aarch64-unknown-linux-gnu
* R was compiled by
    aarch64-unknown-linux-gnu-gcc (GCC) 14.2.0
    GNU Fortran (GCC) 14.2.0
* running under: openEuler 24.03 (LTS-SP1)
* using session charset: UTF-8
* using option ‘--no-vignettes’
* checking for file ‘cyanoFilter/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cyanoFilter’ version ‘1.15.0’
* 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 ‘cyanoFilter’ can be installed ... OK
* 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 code 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 loading without being on the library search path ... 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
Examples with CPU (user + system) or elapsed time > 5s
          user system elapsed
gateFunc 13.23  0.435  10.888
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking running R code from vignettes ... SKIPPED
* checking re-building of vignette outputs ... SKIPPED
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

cyanoFilter.Rcheck/00install.out

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD INSTALL cyanoFilter
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/R/R-devel_2025-02-19/site-library’
* installing *source* package ‘cyanoFilter’ ...
** this is package ‘cyanoFilter’ version ‘1.15.0’
** 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
** testing if installed package can be loaded from final location
** testing if installed package keeps a record of temporary installation path
* DONE (cyanoFilter)

Tests output


Example timings

cyanoFilter.Rcheck/cyanoFilter-Ex.timings

nameusersystemelapsed
MarginEvents0.9580.0280.994
PhytoFilter0.7820.0590.844
PhytopFilter0.8610.1270.992
accTest0.5080.0160.525
accuracy0.5800.0160.597
cellmargin0.3790.0080.389
clusterExtract1.0930.0361.131
clusterExtractp1.0790.0121.092
debrisNc0.6540.1120.768
fullFlowframe-MarginEvents-method0.3960.0040.402
fullFlowframe-PhytopFilter-method0.7990.0280.829
fullFlowframe0.3960.0040.401
gateFunc13.230 0.43510.888
ggpairsDens4.7630.1194.893
ggplotDens0.6960.0230.722
ggplotDens21.0880.0241.115
goodfcs0.0610.0000.062
is.DebrisFilter0.0000.0000.001
is.MarginEvents000
is.PhytopFilter0.0010.0000.000
is.flowFrame0.0000.0000.001
is.flowSet000
lnTrans0.2770.0040.281
newFlowframe0.3210.0080.329
nona0.1250.0040.129
noneg0.2200.0080.229
oneDgate0.2770.0040.282
pairsPlot2.2020.0202.226
pigmentGate0.3710.0040.376
reducedFlowframe-MarginEvents-method0.3970.0120.410
reducedFlowframe0.6750.0400.716
retain0.0150.0040.019
rowNumbers0.2710.0080.280
summaries-DebrisFilter-method0.3950.0000.396
summaries-MarginEvents-method0.3930.0000.394
summaries-PhytopFilter-method0.7910.0080.805
summaries0.4090.0280.438