Multiple platform build/check report for BioC 3.22 - BUILD results for infinityFlow on nebbiolo2

Hostname	OS	Arch (*)	R version	Installed pkgs
nebbiolo2	Linux (Ubuntu 24.04.3 LTS)	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4879
merida1	macOS 12.7.6 Monterey	x86_64	4.5.2 (2025-10-31) -- "[Not] Part in a Rumble"	4668
taishan	Linux (openEuler 24.03 LTS)	aarch64	4.5.0 (2025-04-11) -- "How About a Twenty-Six"	4669
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 infinityFlow on nebbiolo2

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

Version: 1.20.0

Command: /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 infinityFlow

StartedAt: 2025-12-04 18:30:11 -0500 (Thu, 04 Dec 2025)

EndedAt: 2025-12-04 18:31:59 -0500 (Thu, 04 Dec 2025)

EllapsedTime: 108.1 seconds

RetCode: 1

Status: ERROR

PackageFile: None

PackageFileSize: NA

Command output

##############################################################################
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###
### Running command:
###
###   /home/biocbuild/bbs-3.22-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 infinityFlow
###
##############################################################################
##############################################################################


* checking for file ‘infinityFlow/DESCRIPTION’ ... OK
* preparing ‘infinityFlow’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘basic_usage.Rmd’ using rmarkdown

Quitting from basic_usage.Rmd:209-222 [pipeline execution]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! 'xgb.Booster.complete' is not an exported object from 'namespace:xgboost'
---
Backtrace:
    ▆
 1. └─infinityFlow::infinity_flow(...)
 2.   └─infinityFlow:::predict_from_models(...)
 3.     ├─base::do.call(cbind, pblapply(cl = cl, X = models[[i]], FUN = fun))
 4.     └─pbapply::pblapply(cl = cl, X = models[[i]], FUN = fun)
 5.       └─base::lapply(X, FUN, ...)
 6.         └─infinityFlow (local) FUN(X[[i]], ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'basic_usage.Rmd' failed with diagnostics:
'xgb.Booster.complete' is not an exported object from 'namespace:xgboost'
--- failed re-building ‘basic_usage.Rmd’

--- re-building ‘training_non_default_regression_models.Rmd’ using rmarkdown
Warning: closing unused connection 5 (<-localhost:11362)

Quitting from training_non_default_regression_models.Rmd:156-174 [pipeline execution]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! 'xgb.Booster.complete' is not an exported object from 'namespace:xgboost'
---
Backtrace:
    ▆
 1. └─infinityFlow::infinity_flow(...)
 2.   └─infinityFlow:::predict_from_models(...)
 3.     ├─base::do.call(cbind, pblapply(cl = cl, X = models[[i]], FUN = fun))
 4.     └─pbapply::pblapply(cl = cl, X = models[[i]], FUN = fun)
 5.       └─base::lapply(X, FUN, ...)
 6.         └─infinityFlow (local) FUN(X[[i]], ...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'training_non_default_regression_models.Rmd' failed with diagnostics:
'xgb.Booster.complete' is not an exported object from 'namespace:xgboost'
--- failed re-building ‘training_non_default_regression_models.Rmd’

SUMMARY: processing the following files failed:
  ‘basic_usage.Rmd’ ‘training_non_default_regression_models.Rmd’

Error: Vignette re-building failed.
Execution halted