| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2025-12-04 11:35 -0500 (Thu, 04 Dec 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" | 4869 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" | 4576 |
| 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 | ||||
| Package 1050/2331 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| infinityFlow 1.21.0 (landing page) Etienne Becht
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | OK | ERROR | skipped | skipped | |||||||||
|
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. |
| Package: infinityFlow |
| Version: 1.21.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data infinityFlow |
| StartedAt: 2025-12-03 18:25:01 -0500 (Wed, 03 Dec 2025) |
| EndedAt: 2025-12-03 18:26:47 -0500 (Wed, 03 Dec 2025) |
| EllapsedTime: 106.1 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data infinityFlow
###
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* checking for file ‘infinityFlow/DESCRIPTION’ ... OK
* preparing ‘infinityFlow’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed 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 in rep.int(NA_character_, length(x)) :
closing unused connection 5 (<-localhost:11298)
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