Error(s) in re-building vignettes:
  ...
Warning in tools:::buildVignettes(dir = "/home/ripley/R/packages/tests32/dynamichazard.Rcheck/vign_test/dynamichazard",  :
  Files named as vignettes but with no recognized vignette engine:
   ‘vignettes/Comparing_methods_for_logistic_models.md’
(Is a VignetteBuilder field missing?)
--- re-building ‘Comparing_methods_for_logistic_models.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
This is mgcv 1.8-35. For overview type 'help("mgcv-package")'.
Quitting from lines 257-266 (Comparing_methods_for_logistic_models.Rmd) 
Error: processing vignette 'Comparing_methods_for_logistic_models.Rmd' failed with diagnostics:
there is no package called 'timereg'
--- failed re-building ‘Comparing_methods_for_logistic_models.Rmd’

--- re-building ‘Diagnostics.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
  Pandoc (>= 1.12.3) not available. Falling back to R Markdown v1.
Loading required package: survival
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values--- re-building ‘ddhazard.Rnw’ using knitr
sh: git:  not found
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
a_0 not supplied. IWLS estimates of static glm model is used for random walk models. Otherwise the values are zero
--- finished re-building ‘ddhazard.Rnw’

--- re-building ‘Bootstrap_illustration.pdf.asis’ using asis
--- finished re-building ‘Bootstrap_illustration.pdf.asis’

--- re-building ‘Particle_filtering.pdf.asis’ using asis
--- finished re-building ‘Particle_filtering.pdf.asis’

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

Error: Vignette re-building failed.
Execution halted