| Back to Workflows build report for BioC 3.23 |
This page was generated on 2025-11-25 16:30 -0500 (Tue, 25 Nov 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" | 4830 |
| lconway | macOS 12.7.6 Monterey | x86_64 | R Under development (unstable) (2025-10-21 r88958) -- "Unsuffered Consequences" | 4606 |
| 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 26/28 | Hostname | OS / Arch | INSTALL | BUILD | ||||||||
| SingscoreAMLMutations 1.27.0 (landing page) Dharmesh D. Bhuva
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | ||||||||
| lconway | macOS 12.7.6 Monterey / x86_64 | OK | ERROR | |||||||||
|
To the developers/maintainers of the SingscoreAMLMutations 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. |
| Package: SingscoreAMLMutations |
| Version: 1.27.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SingscoreAMLMutations |
| StartedAt: 2025-11-25 13:09:51 -0500 (Tue, 25 Nov 2025) |
| EndedAt: 2025-11-25 13:14:49 -0500 (Tue, 25 Nov 2025) |
| EllapsedTime: 298.2 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SingscoreAMLMutations
###
##############################################################################
##############################################################################
* checking for file ‘SingscoreAMLMutations/DESCRIPTION’ ... OK
* preparing ‘SingscoreAMLMutations’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘workflow_transcriptional_mut_sig.Rmd’ using rmarkdown
tar: Error opening archive: Unrecognized archive format
Quitting from workflow_transcriptional_mut_sig.Rmd:193-195 [gdc_prepare]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `GDCprepare()`:
! I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples.
---
Backtrace:
▆
1. └─TCGAbiolinks::GDCprepare(query_rna, directory = datapath)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'workflow_transcriptional_mut_sig.Rmd' failed with diagnostics:
I couldn't find all the files from the query. Please check if the directory parameter is right or `GDCdownload` downloaded the samples.
--- failed re-building ‘workflow_transcriptional_mut_sig.Rmd’
--- re-building ‘workflow_transcriptional_mut_sig_chinese.Rmd’ using rmarkdown
Quitting from workflow_transcriptional_mut_sig_chinese.Rmd:190-192 [gdc_prepare]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
NULL
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'workflow_transcriptional_mut_sig_chinese.Rmd' failed with diagnostics:
Can't select columns that don't exist.
✖ Column `disease_response` doesn't exist.
--- failed re-building ‘workflow_transcriptional_mut_sig_chinese.Rmd’
SUMMARY: processing the following files failed:
‘workflow_transcriptional_mut_sig.Rmd’
‘workflow_transcriptional_mut_sig_chinese.Rmd’
Error: Vignette re-building failed.
Execution halted