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This page was generated on 2025-08-22 12:03 -0400 (Fri, 22 Aug 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.3 LTS)x86_644.5.1 (2025-06-13) -- "Great Square Root" 4821
lconwaymacOS 12.7.1 Montereyx86_644.5.1 (2025-06-13) -- "Great Square Root" 4599
kjohnson3macOS 13.7.7 Venturaarm644.5.1 Patched (2025-06-14 r88325) -- "Great Square Root" 4541
taishanLinux (openEuler 24.03 LTS)aarch644.5.0 (2025-04-11) -- "How About a Twenty-Six" 4539
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 488/2319HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
cyanoFilter 1.17.0  (landing page)
Oluwafemi Olusoji
Snapshot Date: 2025-08-21 13:45 -0400 (Thu, 21 Aug 2025)
git_url: https://git.bioconductor.org/packages/cyanoFilter
git_branch: devel
git_last_commit: b7725b6
git_last_commit_date: 2025-04-15 12:25:42 -0400 (Tue, 15 Apr 2025)
nebbiolo2Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
lconwaymacOS 12.7.1 Monterey / x86_64  OK    OK    OK    OK  NO, package depends on 'flowCore' which is only available as a source package that needs compilation
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  NO, package depends on 'flowCore' which is only available as a source package that needs compilation
taishanLinux (openEuler 24.03 LTS) / aarch64  OK    OK    OK  


CHECK results for cyanoFilter on nebbiolo2

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.

raw results


Summary

Package: cyanoFilter
Version: 1.17.0
Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:cyanoFilter.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings cyanoFilter_1.17.0.tar.gz
StartedAt: 2025-08-21 21:47:10 -0400 (Thu, 21 Aug 2025)
EndedAt: 2025-08-21 21:49:38 -0400 (Thu, 21 Aug 2025)
EllapsedTime: 148.2 seconds
RetCode: 0
Status:   OK  
CheckDir: cyanoFilter.Rcheck
Warnings: 0

Command output

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### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD check --install=check:cyanoFilter.install-out.txt --library=/home/biocbuild/bbs-3.22-bioc/R/site-library --timings cyanoFilter_1.17.0.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.22-bioc/meat/cyanoFilter.Rcheck’
* using R version 4.5.1 (2025-06-13)
* using platform: x86_64-pc-linux-gnu
* R was compiled by
    gcc (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
    GNU Fortran (Ubuntu 13.3.0-6ubuntu2~24.04) 13.3.0
* running under: Ubuntu 24.04.3 LTS
* using session charset: UTF-8
* checking for file ‘cyanoFilter/DESCRIPTION’ ... OK
* checking extension type ... Package
* this is package ‘cyanoFilter’ version ‘1.17.0’
* 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 8.384  0.389   7.038
* checking for unstated dependencies in vignettes ... OK
* checking package vignettes ... OK
* checking re-building of vignette outputs ... OK
* checking PDF version of manual ... OK
* DONE

Status: OK


Installation output

cyanoFilter.Rcheck/00install.out

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###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD INSTALL cyanoFilter
###
##############################################################################
##############################################################################


* installing to library ‘/home/biocbuild/bbs-3.22-bioc/R/site-library’
* installing *source* package ‘cyanoFilter’ ...
** this is package ‘cyanoFilter’ version ‘1.17.0’
** 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
MarginEvents0.7260.0170.745
PhytoFilter0.5740.0090.584
PhytopFilter0.6140.0070.624
accTest0.3370.0030.340
accuracy0.3710.0030.374
cellmargin0.2880.0050.294
clusterExtract0.7530.0340.788
clusterExtractp0.9490.0490.999
debrisNc0.2850.0160.301
fullFlowframe-MarginEvents-method0.3320.0030.336
fullFlowframe-PhytopFilter-method0.5320.0030.536
fullFlowframe0.2730.0100.283
gateFunc8.3840.3897.038
ggpairsDens3.9140.1654.080
ggplotDens0.5080.0190.528
ggplotDens20.7730.0120.786
goodfcs0.0500.0020.052
is.DebrisFilter0.0010.0000.000
is.MarginEvents0.0000.0000.001
is.PhytopFilter000
is.flowFrame0.0000.0000.001
is.flowSet000
lnTrans0.1970.0090.206
newFlowframe0.1990.0300.229
nona0.1070.0040.111
noneg0.1720.0050.177
oneDgate0.2010.0060.206
pairsPlot1.6650.0151.680
pigmentGate0.2560.0110.267
reducedFlowframe-MarginEvents-method0.2750.0040.279
reducedFlowframe0.7070.0180.726
retain0.0150.0000.016
rowNumbers0.1980.0080.206
summaries-DebrisFilter-method0.2730.0190.293
summaries-MarginEvents-method0.3030.0220.325
summaries-PhytopFilter-method0.5290.0120.540
summaries0.2910.0020.293