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This page was generated on 2026-01-24 11:34 -0500 (Sat, 24 Jan 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo1Linux (Ubuntu 24.04.3 LTS)x86_64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4811
kjohnson3macOS 13.7.7 Venturaarm64R Under development (unstable) (2026-01-15 r89304) -- "Unsuffered Consequences" 4545
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 64/2345HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
amplican 1.33.1  (landing page)
Eivind Valen
Snapshot Date: 2026-01-23 13:40 -0500 (Fri, 23 Jan 2026)
git_url: https://git.bioconductor.org/packages/amplican
git_branch: devel
git_last_commit: dd29ebe
git_last_commit_date: 2025-11-11 10:24:22 -0500 (Tue, 11 Nov 2025)
nebbiolo1Linux (Ubuntu 24.04.3 LTS) / x86_64  OK    OK    OK  UNNEEDED, same version is already published
kjohnson3macOS 13.7.7 Ventura / arm64  OK    ERROR  skippedskipped

BUILD results for amplican on kjohnson3

To the developers/maintainers of the amplican package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/amplican.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: amplican
Version: 1.33.1
Command: /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data amplican
StartedAt: 2026-01-23 15:43:40 -0500 (Fri, 23 Jan 2026)
EndedAt: 2026-01-23 15:43:56 -0500 (Fri, 23 Jan 2026)
EllapsedTime: 16.2 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /Library/Frameworks/R.framework/Resources/bin/R CMD build --keep-empty-dirs --no-resave-data amplican
###
##############################################################################
##############################################################################


* checking for file ‘amplican/DESCRIPTION’ ... OK
* preparing ‘amplican’:
* checking DESCRIPTION meta-information ... OK
* cleaning src
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘amplicanFAQ.Rmd’ using rmarkdown
--- finished re-building ‘amplicanFAQ.Rmd’

--- re-building ‘amplicanOverview.Rmd’ using rmarkdown
--- finished re-building ‘amplicanOverview.Rmd’

--- re-building ‘example_amplicon_report.Rmd’ using rmarkdown
2026-01-23 15:43:52.182 R[74065:822941889] XType: Using static font registry.

Quitting from example_amplicon_report.Rmd:157-159 [plot read heterogeneity]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 14/14 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─amplican::plot_heterogeneity(alignments, config, level = "group")
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'example_amplicon_report.Rmd' failed with diagnostics:
attempt access index 14/14 in VECTOR_ELT
--- failed re-building ‘example_amplicon_report.Rmd’

--- re-building ‘example_barcode_report.Rmd’ using rmarkdown

Quitting from example_barcode_report.Rmd:149-151 [plot read heterogeneity]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 14/14 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─amplican::plot_heterogeneity(alignments, config, level = "Barcode")
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'example_barcode_report.Rmd' failed with diagnostics:
attempt access index 14/14 in VECTOR_ELT
--- failed re-building ‘example_barcode_report.Rmd’

--- re-building ‘example_group_report.Rmd’ using rmarkdown

Quitting from example_group_report.Rmd:115-117 [plot read heterogeneity]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 14/14 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─amplican::plot_heterogeneity(alignments, config, level = "Group")
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'example_group_report.Rmd' failed with diagnostics:
attempt access index 14/14 in VECTOR_ELT
--- failed re-building ‘example_group_report.Rmd’

--- re-building ‘example_guide_report.Rmd’ using rmarkdown

Quitting from example_guide_report.Rmd:114-116 [plot read heterogeneity]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 14/14 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─amplican::plot_heterogeneity(alignments, config, level = "guideRNA")
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'example_guide_report.Rmd' failed with diagnostics:
attempt access index 14/14 in VECTOR_ELT
--- failed re-building ‘example_guide_report.Rmd’

--- re-building ‘example_id_report.Rmd’ using rmarkdown

Quitting from example_id_report.Rmd:131-133 [plot read domination]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `[.data.table`:
! attempt access index 14/14 in VECTOR_ELT
---
Backtrace:
    ▆
 1. └─amplican::plot_heterogeneity(alignments, config)
 2.   ├─...[]
 3.   └─data.table:::`[.data.table`(...)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'example_id_report.Rmd' failed with diagnostics:
attempt access index 14/14 in VECTOR_ELT
--- failed re-building ‘example_id_report.Rmd’

--- re-building ‘example_index.Rmd’ using rmarkdown
--- finished re-building ‘example_index.Rmd’

SUMMARY: processing the following files failed:
  ‘example_amplicon_report.Rmd’ ‘example_barcode_report.Rmd’
  ‘example_group_report.Rmd’ ‘example_guide_report.Rmd’
  ‘example_id_report.Rmd’

Error: Vignette re-building failed.
Execution halted