Error(s) in re-building vignettes:
  ...
--- re-building ‘mbnmadose.Rmd’ using rmarkdown
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-5'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-6'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-7'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Values for `agent` with dose = 0 have been recoded to `Placebo`
agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-8'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-9'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-10'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-11'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-12'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Values for `agent` with dose = 0 have been recoded to `Placebo`
agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
`likelihood` not given by user - set to `normal` based on data provided
`link` not given by user - set to `identity` based on assigned value for `likelihood`
module glm loaded
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-13'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-14'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-15'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in rhat.warning(object) :
  The following parameters have Rhat values > 1.02
which could be due to convergence issues:
d.1[4]
d.1[6]
d.1[8]
d.2[6]
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-16'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-17'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-18'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-19'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Values for `agent` with dose = 0 have been recoded to `Placebo`
agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
Values for `class` with dose = 0 have been recoded to `Placebo`
class is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-20'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-21'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-22'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-23'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-24'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-25'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-26'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-27'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-28'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-29'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-30'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-31'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-32'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-33'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-34'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-35'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-36'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-37'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-38'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-39'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-40'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-41'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-42'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-43'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-44'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-45'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-46'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-47'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Values for `agent` with dose = 0 have been recoded to `Placebo`
agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
`likelihood` not given by user - set to `normal` based on data provided
`link` not given by user - set to `identity` based on assigned value for `likelihood`

Warning: Use of `split.df$dose` is discouraged. Use `dose` instead.
Warning: Use of `split.df$`50%`` is discouraged. Use `50%` instead.
Warning: Use of `split.df$dose` is discouraged. Use `dose` instead.
Warning: Use of `split.df$`2.5%`` is discouraged. Use `2.5%` instead.
Warning: Use of `split.df$`97.5%`` is discouraged. Use `97.5%` instead.
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-48'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-49'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Values for `agent` with dose = 0 have been recoded to `Placebo`
agent is being recoded to enforce sequential numbering and allow inclusion of `Placebo`
`likelihood` not given by user - set to `normal` based on data provided
`link` not given by user - set to `identity` based on assigned value for `likelihood`
`likelihood` not given by user - set to `normal` based on data provided
`link` not given by user - set to `identity` based on assigned value for `likelihood`
Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-51'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-52'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

Warning in block_exec(params) :
  Failed to tidy R code in chunk 'unnamed-chunk-53'. Reason:
Error in loadNamespace(name) : there is no package called 'formatR'

pandoc-citeproc: Error in $: Incompatible API versions: encoded with [1,20] but attempted to decode with [1,17,5,4].
CallStack (from HasCallStack):
  error, called at ./Text/Pandoc/JSON.hs:111:48 in pandoc-types-1.17.5.4-5tHZ3B61A58JaKOMxwGQR4:Text.Pandoc.JSON
Error running filter /usr/bin/pandoc-citeproc:
Filter returned error status 1
Error: processing vignette 'mbnmadose.Rmd' failed with diagnostics:
pandoc document conversion failed with error 83
--- failed re-building ‘mbnmadose.Rmd’

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

Error: Vignette re-building failed.
Execution halted