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This page was generated on 2025-12-23 11:35 -0500 (Tue, 23 Dec 2025).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2025-10-20 r88955) -- "Unsuffered Consequences" 4878
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2025-11-04 r88984) -- "Unsuffered Consequences" 4593
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 723/2332HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
fedup 1.19.0  (landing page)
Catherine Ross
Snapshot Date: 2025-12-22 13:40 -0500 (Mon, 22 Dec 2025)
git_url: https://git.bioconductor.org/packages/fedup
git_branch: devel
git_last_commit: 11eedb8
git_last_commit_date: 2025-10-29 11:07:28 -0500 (Wed, 29 Oct 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    ERROR  skipped
kjohnson3macOS 13.7.7 Ventura / arm64  OK    OK    OK    OK  UNNEEDED, same version is already published

BUILD results for fedup on nebbiolo1

To the developers/maintainers of the fedup package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/fedup.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: fedup
Version: 1.19.0
Command: /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data fedup
StartedAt: 2025-12-22 17:35:15 -0500 (Mon, 22 Dec 2025)
EndedAt: 2025-12-22 17:35:37 -0500 (Mon, 22 Dec 2025)
EllapsedTime: 22.0 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.23-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data fedup
###
##############################################################################
##############################################################################


* checking for file ‘fedup/DESCRIPTION’ ... OK
* preparing ‘fedup’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘fedup_doubleTest.rmd’ using rmarkdown

Quitting from fedup_doubleTest.rmd:51-53 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
---
Backtrace:
    ▆
 1. └─devtools::install_github("rosscm/fedup", quiet = TRUE)
 2.   ├─pkgbuild::with_build_tools(...)
 3.   └─remotes:::install_remotes(...)
 4.     └─base::tryCatch(...)
 5.       └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 6.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 7.           └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'fedup_doubleTest.rmd' failed with diagnostics:
Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
--- failed re-building ‘fedup_doubleTest.rmd’

--- re-building ‘fedup_mutliTest.rmd’ using rmarkdown

Quitting from fedup_mutliTest.rmd:51-53 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
---
Backtrace:
    ▆
 1. └─devtools::install_github("rosscm/fedup", quiet = TRUE)
 2.   ├─pkgbuild::with_build_tools(...)
 3.   └─remotes:::install_remotes(...)
 4.     └─base::tryCatch(...)
 5.       └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 6.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 7.           └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'fedup_mutliTest.rmd' failed with diagnostics:
Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
--- failed re-building ‘fedup_mutliTest.rmd’

--- re-building ‘fedup_singleTest.rmd’ using rmarkdown

Quitting from fedup_singleTest.rmd:51-53 [unnamed-chunk-3]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error:
! Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
---
Backtrace:
    ▆
 1. └─devtools::install_github("rosscm/fedup", quiet = TRUE)
 2.   ├─pkgbuild::with_build_tools(...)
 3.   └─remotes:::install_remotes(...)
 4.     └─base::tryCatch(...)
 5.       └─base (local) tryCatchList(expr, classes, parentenv, handlers)
 6.         └─base (local) tryCatchOne(expr, names, parentenv, handlers[[1L]])
 7.           └─value[[3L]](cond)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'fedup_singleTest.rmd' failed with diagnostics:
Failed to install 'fedup' from GitHub:
  JSON: EXPECTED value GOT <
--- failed re-building ‘fedup_singleTest.rmd’

SUMMARY: processing the following files failed:
  ‘fedup_doubleTest.rmd’ ‘fedup_mutliTest.rmd’ ‘fedup_singleTest.rmd’

Error: Vignette re-building failed.
Execution halted