Error(s) in re-building vignettes:
--- re-building 'RRphylo.Rmd' using rmarkdown
Loading required package: ape
Loading required package: kableExtra
Loading required package: phytools
Loading required package: maps

Attaching package: 'phytools'

The following object is masked from 'package:RRphylo':

    node.paths

--- finished re-building 'RRphylo.Rmd'

--- re-building 'Tree-Manipulation.Rmd' using rmarkdown
Loading required package: ape
Loading required package: phytools
Loading required package: maps

Attaching package: 'phytools'

The following object is masked from 'package:RRphylo':

    node.paths

Loading required package: kableExtra
--- finished re-building 'Tree-Manipulation.Rmd'

--- re-building 'overfitRR.Rmd' using rmarkdown
Loading required package: RRphylo
Loading required package: emmeans
--- finished re-building 'overfitRR.Rmd'

--- re-building 'search.conv.Rmd' using rmarkdown
Loading required package: kableExtra
Loading required package: vegan
Loading required package: permute
Loading required package: lattice
This is vegan 2.6-2

Attaching package: 'vegan'

The following object is masked from 'package:phytools':

    scores

Loading required package: cluster

Attaching package: 'cluster'

The following object is masked from 'package:maps':

    votes.repub

Loading required package: plotrix

Attaching package: 'plotrix'

The following object is masked from 'package:rgl':

    mtext3d

Loading required package: geomorph
Loading required package: RRPP
Loading required package: Matrix
Loading required package: pdftools
Using poppler version 22.04.0
--- finished re-building 'search.conv.Rmd'

--- re-building 'search.shift.Rmd' using rmarkdown
Loading required package: ape
Loading required package: phytools
Loading required package: maps

Attaching package: 'phytools'

The following object is masked from 'package:RRphylo':

    node.paths

Loading required package: scales
Loading required package: kableExtra
Loading required package: plotrix

Attaching package: 'plotrix'

The following object is masked from 'package:scales':

    rescale

Loading required package: RColorBrewer
--- finished re-building 'search.shift.Rmd'

--- re-building 'search.trend.Rmd' using rmarkdown
Loading required package: ape
Loading required package: phytools
Loading required package: maps

Attaching package: 'phytools'

The following object is masked from 'package:RRphylo':

    node.paths

Loading required package: ddpcr

Attaching package: 'ddpcr'

The following object is masked from 'package:stats':

    step

Quitting from lines 43-166 (search.trend.Rmd) 
Error: processing vignette 'search.trend.Rmd' failed with diagnostics:
worker initialization failed: there is no package called 'geiger'
--- failed re-building 'search.trend.Rmd'

--- re-building 'swapONE.Rmd' using rmarkdown
Loading required package: ape
Loading required package: phytools
Loading required package: maps

Attaching package: 'phytools'

The following object is masked from 'package:RRphylo':

    node.paths

--- finished re-building 'swapONE.Rmd'

SUMMARY: processing the following file failed:
  'search.trend.Rmd'

Error: Vignette re-building failed.
Execution halted