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

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2024-10-21 r87258) -- "Unsuffered Consequences"	4754
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2024-10-26 r87273 ucrt) -- "Unsuffered Consequences"	4472
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4426
kjohnson3	macOS 13.7.1 Ventura	arm64	R Under development (unstable) (2024-11-20 r87352) -- "Unsuffered Consequences"	4381
kunpeng2	Linux (openEuler 22.03 LTS-SP1)	aarch64	R Under development (unstable) (2024-11-24 r87369) -- "Unsuffered Consequences"	4373
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 CoGAPS on kunpeng2

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

Version: 3.27.0

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

StartedAt: 2024-12-23 22:00:13 -0000 (Mon, 23 Dec 2024)

EndedAt: 2024-12-23 22:08:37 -0000 (Mon, 23 Dec 2024)

EllapsedTime: 504.2 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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### Running command:
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###   /home/biocbuild/R/R/bin/R CMD build --keep-empty-dirs --no-resave-data CoGAPS
###
##############################################################################
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* checking for file ‘CoGAPS/DESCRIPTION’ ... OK
* preparing ‘CoGAPS’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* running ‘cleanup’
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘CoGAPS.Rmd’ using rmarkdown
Data Model: Dense, Normal
Sampler Type: Sequential
Loading Data...Done! (00:00:00)
-- Equilibration Phase --
10000 of 50000, Atoms: 74(A), 32(P), ChiSq: 345, Time: 00:00:00 / 00:00:00
20000 of 50000, Atoms: 87(A), 40(P), ChiSq: 169, Time: 00:00:01 / 00:00:05
30000 of 50000, Atoms: 79(A), 35(P), ChiSq: 160, Time: 00:00:01 / 00:00:03
40000 of 50000, Atoms: 78(A), 35(P), ChiSq: 133, Time: 00:00:02 / 00:00:05
50000 of 50000, Atoms: 78(A), 38(P), ChiSq: 119, Time: 00:00:02 / 00:00:04
-- Sampling Phase --
10000 of 50000, Atoms: 78(A), 33(P), ChiSq: 130, Time: 00:00:03 / 00:00:05
20000 of 50000, Atoms: 90(A), 34(P), ChiSq: 141, Time: 00:00:04 / 00:00:05
30000 of 50000, Atoms: 85(A), 31(P), ChiSq: 111, Time: 00:00:04 / 00:00:05
40000 of 50000, Atoms: 93(A), 42(P), ChiSq: 131, Time: 00:00:05 / 00:00:05
50000 of 50000, Atoms: 84(A), 35(P), ChiSq: 125, Time: 00:00:06 / 00:00:06

Quitting from lines 205-212 [load single cell data from zenodo] (CoGAPS.Rmd)
Error: processing vignette 'CoGAPS.Rmd' failed with diagnostics:
not all 'rnames' found or unique.
--- failed re-building ‘CoGAPS.Rmd’

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

Error: Vignette re-building failed.
Execution halted