Error in re-building vignettes:
  ...
Loading required package: adegenet
Loading required package: ade4

   /// adegenet 2.1.1 is loaded ////////////

   > overview: '?adegenet'
   > tutorials/doc/questions: 'adegenetWeb()' 
   > bug reports/feature requests: adegenetIssues()


This is poppr version 2.8.1. To get started, type package?poppr
OMP parallel support: available
Loading required package: ape

Attaching package: 'phangorn'

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

    AICc

Error : cannot evaluate distance function, it might be missing.

Found 617 missing values.

2 loci contained missing values greater than 5%

Removing 2 loci: fca8, fca45

Found 617 missing values.

38 genotypes contained missing values greater than 5%

Removing 38 genotypes: N215, N216, N188, N189, N190, N191, N192, N298, N299,
N300, N301, N302, N303, N304, N310, N195, N197, N198, N199, N200, N201, N206,
N182, N184, N186, N282, N283, N288, N291, N292, N293, N294, N295, N296, N297,
N281, N289, N290
Warning in plot.window(...) : "border" is not a graphical parameter
Warning in plot.window(...) : "fill" is not a graphical parameter
Warning in plot.xy(xy, type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy, type, ...) : "fill" is not a graphical parameter
Warning in axis(side = side, at = at, labels = labels, ...) :
  "border" is not a graphical parameter
Warning in axis(side = side, at = at, labels = labels, ...) :
  "fill" is not a graphical parameter
Warning in axis(side = side, at = at, labels = labels, ...) :
  "border" is not a graphical parameter
Warning in axis(side = side, at = at, labels = labels, ...) :
  "fill" is not a graphical parameter
Warning in box(...) : "border" is not a graphical parameter
Warning in box(...) : "fill" is not a graphical parameter
Warning in title(...) : "border" is not a graphical parameter
Warning in title(...) : "fill" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "fill" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "fill" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "fill" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "fill" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "border" is not a graphical parameter
Warning in plot.xy(xy.coords(x, y), type = type, ...) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "border" is not a graphical parameter
Warning in doTryCatch(return(expr), name, parentenv, handler) :
  "fill" is not a graphical parameter
Warning in infinite_vals_replacement(D, warning) :
  Infinite values detected.
Error in texi2dvi(file = file, pdf = TRUE, clean = clean, quiet = quiet,  : 
  Running 'texi2dvi' on 'algo.tex' failed.
LaTeX errors:
! Use of \@startpbox doesn't match its definition.
<inserted text> \@startpbox {
                             @{}l@{\quad }l@{}}
l.664 h = \begin{cases}
                        1 \text{ if heterozygous},\\ 0 \text{ if homozygous ...
! Extra }, or forgotten \endgroup.
\@mkpream ...after \@startpbox \expandafter {#1}}}
                                                  \let \@endpbox \relax \let...
l.664 h = \begin{cases}
                        1 \text{ if heterozygous},\\ 0 \text{ if homozygous ...
Calls: buildVignettes -> texi2pdf -> texi2dvi
Execution halted