Multiple platform build/check report for BioC 3.21 - BUILD results for zFPKM 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"	4824
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4566
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4604
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4545
kunpeng2	Linux (openEuler 24.03 LTS)	aarch64	R Under development (unstable) (2025-02-19 r87757) -- "Unsuffered Consequences"	4579
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 zFPKM on kunpeng2

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

Version: 1.30.0

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

StartedAt: 2025-08-12 05:18:50 -0000 (Tue, 12 Aug 2025)

EndedAt: 2025-08-12 05:19:53 -0000 (Tue, 12 Aug 2025)

EllapsedTime: 62.9 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 zFPKM
###
##############################################################################
##############################################################################


* checking for file ‘zFPKM/DESCRIPTION’ ... OK
* preparing ‘zFPKM’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘zFPKM.Rmd’ using rmarkdown
trying URL 'ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE94nnn/GSE94802/suppl/GSE94802_Minkina_etal_normalized_FPKM.csv.gz'
Content type 'unknown' length 800733 bytes (781 KB)
==================================================
trying URL 'ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE94nnn/GSE94802/suppl/GSE94802_Minkina_etal_raw_counts.csv.gz'
Content type 'unknown' length 574041 bytes (560 KB)
==================================================

Quitting from zFPKM.Rmd:33-70 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `scan()`:
! error reading from the connection
---
Backtrace:
    ▆
 1. ├─SummarizedExperiment::SummarizedExperiment(...)
 2. │ └─SummarizedExperiment:::normarg_assays(assays, as.null.if.no.assay = TRUE)
 3. ├─S4Vectors::SimpleList(...)
 4. └─global getSpecificGEOSupp(gse94802_counts)
 5.   └─utils::read.csv(gzfile(temp), row.names = 1, check.names = FALSE)
 6.     └─utils::read.table(...)
 7.       └─base::scan(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'zFPKM.Rmd' failed with diagnostics:
error reading from the connection
--- failed re-building ‘zFPKM.Rmd’

SUMMARY: processing the following file failed:
  ‘zFPKM.Rmd’

Error: Vignette re-building failed.
Execution halted