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This page was generated on 2026-04-24 11:33 -0400 (Fri, 24 Apr 2026).

HostnameOSArch (*)R versionInstalled pkgs
nebbiolo2Linux (Ubuntu 24.04.4 LTS)x86_644.6.0 RC (2026-04-17 r89917) -- "Because it was There" 4800
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 715/2351HostnameOS / ArchINSTALLBUILDCHECKBUILD BIN
fastreeR 2.1.4  (landing page)
Anestis Gkanogiannis
Snapshot Date: 2026-04-23 13:45 -0400 (Thu, 23 Apr 2026)
git_url: https://git.bioconductor.org/packages/fastreeR
git_branch: devel
git_last_commit: baf33a7
git_last_commit_date: 2026-04-22 19:15:15 -0400 (Wed, 22 Apr 2026)
nebbiolo2Linux (Ubuntu 24.04.4 LTS) / x86_64  OK    ERROR  skipped
See other builds for fastreeR in R Universe.

BUILD results for fastreeR on nebbiolo2

To the developers/maintainers of the fastreeR package:
- Allow up to 24 hours (and sometimes 48 hours) for your latest push to git@git.bioconductor.org:packages/fastreeR.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: fastreeR
Version: 2.1.4
Command: /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 fastreeR
StartedAt: 2026-04-23 17:36:40 -0400 (Thu, 23 Apr 2026)
EndedAt: 2026-04-23 17:38:32 -0400 (Thu, 23 Apr 2026)
EllapsedTime: 112.1 seconds
RetCode: 1
Status:   ERROR  
PackageFile: None
PackageFileSize: NA

Command output

##############################################################################
##############################################################################
###
### Running command:
###
###   /home/biocbuild/bbs-3.24-bioc/R/bin/R CMD build --keep-empty-dirs --no-resave-data --md5 fastreeR
###
##############################################################################
##############################################################################


* checking for file ‘fastreeR/DESCRIPTION’ ... OK
* preparing ‘fastreeR’:
* checking DESCRIPTION meta-information ... OK
* installing the package (it is needed to build vignettes)
* creating vignettes ... ERROR
--- re-building ‘fastreeR_vignette.Rmd’ using rmarkdown
VCF2ISTATS
Version: 2.7.0
Build Time: 2026-04-22T22:52:30Z
Num of Ind = 150
VCF2DIST
Version: 2.7.0
Build Time: 2026-04-22T22:52:30Z
150 0
VCF2TREE
Version: 2.7.0
Build Time: 2026-04-22T22:52:30Z
VCF2TREE
Version: 2.7.0
Build Time: 2026-04-22T22:52:30Z
150 0
2026-04-23 17:38:30 Clusters=1

HG00124	1	150
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[ERROR]	2026-04-23 17:38:31	JavaUtils: Can not get boolean field com.gkano.bioinfo.javautils.UtilFASTA2DIST.help on com.gkano.bioinfo.javautils.UtilFASTA2TREE

Quitting from fastreeR_vignette.Rmd:417-419 [unnamed-chunk-16]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `utils::read.table()`:
! no lines available in input
---
Backtrace:
    ▆
 1. └─fastreeR::fasta2dist(tempFastas, kmer = 6)
 2.   └─utils::read.table(text = ret.str[-1])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'fastreeR_vignette.Rmd' failed with diagnostics:
no lines available in input
--- failed re-building ‘fastreeR_vignette.Rmd’

SUMMARY: processing the following file failed:
  ‘fastreeR_vignette.Rmd’

Error: Vignette re-building failed.
Execution halted