Multiple platform build/check report for BioC 3.21 - BUILD results for cfdnakit on kunpeng2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4827
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4608
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4549
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4581
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*

BUILD results for cfdnakit on kunpeng2

To the developers/maintainers of the cfdnakit package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/cfdnakit.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: cfdnakit

Version: 1.6.0

Command: /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data cfdnakit

StartedAt: 2025-09-22 23:24:26 -0000 (Mon, 22 Sep 2025)

EndedAt: 2025-09-22 23:25:13 -0000 (Mon, 22 Sep 2025)

EllapsedTime: 47.0 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data cfdnakit
###
##############################################################################
##############################################################################


* checking for file ‘cfdnakit/DESCRIPTION’ ... OK
* preparing ‘cfdnakit’:
* checking DESCRIPTION meta-information ... OK
* installing the package to process help pages
* saving partial Rd database
* creating vignettes ... ERROR
--- re-building ‘cfdnakit-vignette.Rmd’ using rmarkdown

Quitting from cfdnakit-vignette.Rmd:244-248 [Reading PoN samples and plot scaled value]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `nbrOfSegments()`:
! could not find function "nbrOfSegments"
---
Backtrace:
     ▆
  1. ├─cfdnakit::segmentByPSCB(sample_zscore)
  2. │ ├─PSCBS::segmentByCBS(...)
  3. │ └─PSCBS::segmentByCBS.data.frame(...)
  4. │   ├─PSCBS::segmentByCBS(...)
  5. │   └─PSCBS::segmentByCBS.default(...)
  6. │     ├─base::as.list(fitList)
  7. │     └─listenv:::as.list.listenv(fitList)
  8. │       └─base::mget(vars[ok], envir = x, inherits = FALSE)
  9. └─base::local(...)
 10.   └─base::eval.parent(substitute(eval(quote(expr), envir)))
 11.     └─base::eval(expr, p)
 12.       └─base::eval(expr, p)
 13.         └─base::eval(...)
 14.           └─base::eval(...)
 15.             ├─future::value(future)
 16.             └─future:::value.Future(future)
 17.               └─future:::signalConditions(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'cfdnakit-vignette.Rmd' failed with diagnostics:
could not find function "nbrOfSegments"
--- failed re-building ‘cfdnakit-vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘cfdnakit-vignette.Rmd’

Error: Vignette re-building failed.
Execution halted