| Back to Multiple platform build/check report for BioC 3.23: simplified long |
|
This page was generated on 2026-03-13 11:33 -0400 (Fri, 13 Mar 2026).
| Hostname | OS | Arch (*) | R version | Installed pkgs |
|---|---|---|---|---|
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) | x86_64 | R Under development (unstable) (2026-03-05 r89546) -- "Unsuffered Consequences" | 4819 |
| kjohnson3 | macOS 13.7.7 Ventura | arm64 | R Under development (unstable) (2026-03-01 r89506) -- "Unsuffered Consequences" | 4049 |
| 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 622/2360 | Hostname | OS / Arch | INSTALL | BUILD | CHECK | BUILD BIN | ||||||||
| Doscheda 1.33.0 (landing page) Bruno Contrino
| nebbiolo1 | Linux (Ubuntu 24.04.3 LTS) / x86_64 | OK | ERROR | skipped | |||||||||
| kjohnson3 | macOS 13.7.7 Ventura / arm64 | ERROR | ERROR | skipped | skipped | |||||||||
| See other builds for Doscheda in R Universe. | ||||||||||||||
|
To the developers/maintainers of the Doscheda package: - Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/Doscheda.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: Doscheda |
| Version: 1.33.0 |
| Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Doscheda |
| StartedAt: 2026-03-12 17:17:16 -0400 (Thu, 12 Mar 2026) |
| EndedAt: 2026-03-12 17:17:48 -0400 (Thu, 12 Mar 2026) |
| EllapsedTime: 32.0 seconds |
| RetCode: 1 |
| Status: ERROR |
| PackageFile: None |
| PackageFileSize: NA |
##############################################################################
##############################################################################
###
### Running command:
###
### /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data Doscheda
###
##############################################################################
##############################################################################
* checking for file ‘Doscheda/DESCRIPTION’ ... OK
* preparing ‘Doscheda’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘Doscheda.Rmd’ using rmarkdown
Quitting from Doscheda.Rmd:147-150 [fitModelEx]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! lexical error: invalid char in json text.
<html> <head> <title>https://ww
(right here) ------^
---
Backtrace:
▆
1. ├─Doscheda::runNormalisation(ex)
2. └─Doscheda::runNormalisation(ex)
3. └─Doscheda:::normalize_data(...)
4. └─Doscheda:::uniprotGene(organism)
5. └─jsonlite::fromJSON(httr::content(ret, as = "text"))
6. └─jsonlite:::parse_and_simplify(...)
7. └─jsonlite:::parseJSON(txt, bigint_as_char)
8. └─jsonlite:::parse_string(txt, bigint_as_char)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'Doscheda.Rmd' failed with diagnostics:
lexical error: invalid char in json text.
<html> <head> <title>https://ww
(right here) ------^
--- failed re-building ‘Doscheda.Rmd’
SUMMARY: processing the following file failed:
‘Doscheda.Rmd’
Error: Vignette re-building failed.
Execution halted