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

Attaching package: 'dplyr'

The following objects are masked from 'package:stats':

    filter, lag

The following objects are masked from 'package:base':

    intersect, setdiff, setequal, union

`summarise()` has grouped output by 'ID'. You can override using the `.groups` argument.
Joining, by = "ID"
Warning: position_dodge requires non-overlapping x intervals
Warning: position_dodge requires non-overlapping x intervals
`geom_smooth()` using formula 'y ~ x'
`geom_smooth()` using formula 'y ~ x'
Warning in self$trans$transform(x) : NaNs produced
Warning: Transformation introduced infinite values in continuous y-axis
Warning in self$trans$transform(x) : NaNs produced
Warning: Transformation introduced infinite values in continuous y-axis
Warning in self$trans$transform(x) : NaNs produced
Warning: Transformation introduced infinite values in continuous y-axis
Warning: Removed 468 rows containing non-finite values (stat_summary).
Warning: Removed 468 rows containing non-finite values (stat_summary).
Warning: Removed 468 rows containing non-finite values (stat_summary).
Warning in self$trans$transform(x) : NaNs produced
Warning: Transformation introduced infinite values in continuous y-axis
Warning in self$trans$transform(x) : NaNs produced
Warning: Transformation introduced infinite values in continuous y-axis
Warning: Removed 172 row(s) containing missing values (geom_path).
Warning: Removed 468 rows containing missing values (geom_point).
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
geom_path: Each group consists of only one observation. Do you need to adjust
the group aesthetic?
Warning: Ignoring unknown parameters: shape
`geom_smooth()` using method = 'loess' and formula 'y ~ x'
`geom_smooth()` using method = 'loess' and formula 'y ~ x'
--- finished re-building ‘sad_pkpd.Rmd’

--- re-building ‘theoph.Rmd’ using rmarkdown
No summary function supplied, defaulting to `mean_se()`
Warning: Removed 4 rows containing missing values (geom_segment).
No summary function supplied, defaulting to `mean_se()`
Warning: Removed 4 rows containing missing values (geom_segment).
`geom_smooth()` using formula 'y ~ x'
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  pseudoinverse used at 2.431
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  neighborhood radius 0.074155
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  reciprocal condition number  0
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  at  2.5055
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  radius  1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  all data on boundary of neighborhood. make span bigger
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  There are other near singularities as well. 1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  zero-width neighborhood. make span bigger
Warning: Computation failed in `stat_smooth()`:
NA/NaN/Inf in foreign function call (arg 5)
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  pseudoinverse used at 2.431
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  neighborhood radius 0.074155
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  reciprocal condition number  0
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  at  2.5055
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  radius  1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  all data on boundary of neighborhood. make span bigger
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  There are other near singularities as well. 1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  zero-width neighborhood. make span bigger
Warning: Computation failed in `stat_smooth()`:
NA/NaN/Inf in foreign function call (arg 5)
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  pseudoinverse used at 2.431
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  neighborhood radius 0.074155
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  reciprocal condition number  0
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  at  2.5055
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  radius  1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  all data on boundary of neighborhood. make span bigger
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  There are other near singularities as well. 1.3611e-07
Warning in simpleLoess(y, x, w, span, degree = degree, parametric = parametric,  :
  zero-width neighborhood. make span bigger
Warning: Computation failed in `stat_smooth()`:
NA/NaN/Inf in foreign function call (arg 5)
Warning: Unknown or uninitialised column: `Covariate`.
`geom_smooth()` using formula 'y ~ x'
--- finished re-building ‘theoph.Rmd’

--- re-building ‘xgxr_overview.Rmd’ using rmarkdown
Quitting from lines 105-115 (xgxr_overview.Rmd) 
Error: processing vignette ‘xgxr_overview.Rmd’ failed with diagnostics:
non-numeric argument to binary operator
--- failed re-building ‘xgxr_overview.Rmd’

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

Error: Vignette re-building failed.
Execution halted