| Back to Workflows build report for BioC 3.21 |
This page was generated on 2025-04-22 16:30 -0400 (Tue, 22 Apr 2025).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4831 |
| palomino7 | Windows Server 2022 Datacenter | x64 | 4.5.0 RC (2025-04-04 r88126 ucrt) -- "How About a Twenty-Six" | 4573 |
| lconway | macOS 12.7.1 Monterey | x86_64 | 4.5.0 RC (2025-04-04 r88126) -- "How About a Twenty-Six" | 4599 |
| 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 27/30 | Hostname | OS / Arch | INSTALL | BUILD | ||||||||
| SingscoreAMLMutations 1.24.0 (landing page) Dharmesh D. Bhuva
| nebbiolo1 | Linux (Ubuntu 24.04.1 LTS) / x86_64 | OK | ERROR | ||||||||
| palomino7 | Windows Server 2022 Datacenter / x64 | OK | ERROR | |||||||||
| lconway | macOS 12.7.1 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: 1.24.0 |
| Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SingscoreAMLMutations |
| StartedAt: 2025-04-22 13:08:35 -0400 (Tue, 22 Apr 2025) |
| EndedAt: 2025-04-22 13:22:59 -0400 (Tue, 22 Apr 2025) |
| EllapsedTime: 864.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
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### Running command:
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### /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data SingscoreAMLMutations
###
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* checking for file ‘SingscoreAMLMutations/DESCRIPTION’ ... OK
* preparing ‘SingscoreAMLMutations’:
* checking DESCRIPTION meta-information ... OK
* installing the package to build vignettes
* creating vignettes ... ERROR
--- re-building ‘workflow_transcriptional_mut_sig.Rmd’ using rmarkdown
5d650ac1-5544-45ec-a1b6-00f98081d2b8/24125fc9-e366-49a0-a35f-004bfabd559b.rna_seq.augmented_star_gene_counts.tsv: truncated gzip input
tar: Error exit delayed from previous errors.
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
6e52e950-7e51-4e12-b194-68d935cb96f0/adc73ced-098f-49a4-b86a-5715804d094f.rna_seq.augmented_star_gene_counts.tsv: truncated gzip input
tar: Error exit delayed from previous errors.
Quitting from workflow_transcriptional_mut_sig_chinese.Rmd:190-192 [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_chinese.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_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