Multiple platform build/check report for BioC 3.21 - BUILD results for UMI4Cats on palomino7

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.2 LTS)	x86_64	4.5.1 (2025-06-13) -- "Great Square Root"	4823
palomino7	Windows Server 2022 Datacenter	x64	4.5.1 (2025-06-13 ucrt) -- "Great Square Root"	4565
merida1	macOS 12.7.5 Monterey	x86_64	4.5.1 RC (2025-06-05 r88288) -- "Great Square Root"	4603
kjohnson1	macOS 13.6.6 Ventura	arm64	4.5.1 Patched (2025-06-14 r88325) -- "Great Square Root"	4544
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 UMI4Cats on palomino7

To the developers/maintainers of the UMI4Cats package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/UMI4Cats.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: UMI4Cats

Version: 1.18.1

Command: chmod a+r UMI4Cats -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data UMI4Cats

StartedAt: 2025-07-31 22:58:18 -0400 (Thu, 31 Jul 2025)

EndedAt: 2025-07-31 22:59:39 -0400 (Thu, 31 Jul 2025)

EllapsedTime: 80.8 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   chmod a+r UMI4Cats -R && E:\biocbuild\bbs-3.21-bioc\R\bin\R.exe CMD build --keep-empty-dirs --no-resave-data UMI4Cats
###
##############################################################################
##############################################################################


* checking for file 'UMI4Cats/DESCRIPTION' ... OK
* preparing 'UMI4Cats':
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building 'UMI4Cats.Rmd' using rmarkdown
UMI4Cats_data_reduced/ref_genome/ucsc.hg19.chr16.rev.1.bt2: truncated gzip input
tar.exe: Error exit delayed from previous errors.

Quitting from UMI4Cats.Rmd:186-206 [demultiplex]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `open.connection()`:
! cannot open the connection
---
Backtrace:
     ▆
  1. └─UMI4Cats::demultiplexFastq(...)
  2.   ├─ShortRead::FastqStreamer(fq_R1)
  3.   └─ShortRead::FastqStreamer(fq_R1)
  4.     ├─methods::callGeneric(...)
  5.     │ └─base::eval(call, parent.frame())
  6.     │   └─base::eval(call, parent.frame())
  7.     ├─ShortRead::FastqStreamer(...)
  8.     └─ShortRead::FastqStreamer(...)
  9.       ├─base::open(con, "rb")
 10.       └─base::open.connection(con, "rb")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'UMI4Cats.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building 'UMI4Cats.Rmd'

SUMMARY: processing the following file failed:
  'UMI4Cats.Rmd'

Error: Vignette re-building failed.
Execution halted