Error(s) in re-building vignettes:
  ...
--- re-building ‘concatenation.Rmd’ using rmarkdown
--- finished re-building ‘concatenation.Rmd’

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

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

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

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

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

Quitting from posterior_tree_distribution.Rmd:16-54 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `file()`:
! cannot open the connection to 'https://raw.githubusercontent.com/gaballench/cynodontidaeWare/refs/heads/main/bayesian/mrbayes/concatenatedMolmorph.nexus.run2.t'
---
Backtrace:
    ▆
 1. └─ape::read.nexus(...)
 2.   └─base::scan(file = file, what = "", sep = "\n", quiet = TRUE)
 3.     └─base::file(file, "r")
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~

Error: processing vignette 'posterior_tree_distribution.Rmd' failed with diagnostics:
cannot open the connection to 'https://raw.githubusercontent.com/gaballench/cynodontidaeWare/refs/heads/main/bayesian/mrbayes/concatenatedMolmorph.nexus.run2.t'
--- failed re-building ‘posterior_tree_distribution.Rmd’

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

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

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

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

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

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

Error: Vignette re-building failed.
Execution halted