Long Tests report for BioC 3.21 - CHECK results for xcms on nebbiolo1

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo1	Linux (Ubuntu 24.04.1 LTS)	x86_64	R Under development (unstable) (2025-03-13 r87965) -- "Unsuffered Consequences"	196
palomino7	Windows Server 2022 Datacenter	x64	R Under development (unstable) (2025-03-01 r87860 ucrt) -- "Unsuffered Consequences"	4537
lconway	macOS 12.7.1 Monterey	x86_64	R Under development (unstable) (2025-03-02 r87868) -- "Unsuffered Consequences"	4567
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*

CHECK results for xcms on nebbiolo1

To the developers/maintainers of the xcms package:
- 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: xcms

Version: 4.5.4

Command: /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no xcms_4.5.4.tar.gz

StartedAt: 2025-03-15 16:01:15 -0400 (Sat, 15 Mar 2025)

EndedAt: 2025-03-15 16:01:19 -0400 (Sat, 15 Mar 2025)

EllapsedTime: 4.0 seconds

RetCode: 1

Status: ERROR

CheckDir: xcms.Rcheck

Warnings: NA

Tests output

'R CMD check' output

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### Running command:
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###   /home/biocbuild/bbs-3.21-bioc/R/bin/R CMD check --test-dir=longtests --no-stop-on-test-error --no-codoc --no-examples --no-manual --ignore-vignettes --check-subdirs=no xcms_4.5.4.tar.gz
###
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* using log directory ‘/home/biocbuild/bbs-3.21-bioc-longtests/meat/xcms.Rcheck’
* using R Under development (unstable) (2025-03-13 r87965)
* 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 24.04.2 LTS
* using session charset: UTF-8
* using options ‘--no-codoc --no-examples --no-manual --ignore-vignettes --no-stop-on-test-error’
* checking for file ‘xcms/DESCRIPTION’ ... OK
* this is package ‘xcms’ version ‘4.5.4’
* package encoding: UTF-8
* checking package namespace information ... OK
* checking package dependencies ... ERROR
Packages required but not available:
  'MSnbase', 'mzR', 'ProtGenerics', 'MassSpecWavelet', 'MsCoreUtils',
  'MsFeatures', 'MsExperiment', 'Spectra', 'progress', 'RColorBrewer',
  'MetaboCoreUtils'

Packages suggested but not available:
  'caTools', 'faahKO', 'msdata', 'ncdf4', 'pander', 'MALDIquant',
  'pheatmap', 'RANN', 'multtest', 'MsBackendMgf', 'signal'

Package which this enhances but not available for checking: ‘rgl’

The suggested packages are required for a complete check.
Checking can be attempted without them by setting the environment
variable _R_CHECK_FORCE_SUGGESTS_ to a false value.

See section ‘The DESCRIPTION file’ in the ‘Writing R Extensions’
manual.
* DONE

Status: 1 ERROR
See
  ‘/home/biocbuild/bbs-3.21-bioc-longtests/meat/xcms.Rcheck/00check.log’
for details.

CHECK results for xcms on nebbiolo1

Summary

Tests output

'R CMD check' output

Installation output