Error(s) in re-building vignettes:
--- re-building 'mapmisc.Rnw' using knitr
Loading required package: sp
Loading required package: raster
map images will be cached in  D:\temp\Rtmp0IidLN/mapmiscCache
--- finished re-building 'mapmisc.Rnw'

--- re-building 'north.Rmd' using docco_linear
Quitting from lines 273-286 (north.Rmd) 
Error: processing vignette 'north.Rmd' failed with diagnostics:
invalid layer names
--- failed re-building 'north.Rmd'

make[1]: Entering directory '/d/RCompile/CRANpkg/local/4.0/mapmisc.Rcheck/vign_test/mapmisc/vignettes'
pandoc --self-contained --to=html5 --css=http://diseasemapping.r-forge.r-project.org/webpage.css --output=north.html north.md	
xelatex -interaction=nonstopmode mapmisc.tex;
This is XeTeX, Version 3.14159265-2.6-0.99992 (MiKTeX 2.9)
entering extended mode
(mapmisc.tex
LaTeX2e <2016/02/01>
Babel <3.9n> and hyphenation patterns for 69 languages loaded.
(D:\Compiler\texmf\tex\latex\base\article.cls
Document Class: article 2014/09/29 v1.4h Standard LaTeX document class
(D:\Compiler\texmf\tex\latex\base\size12.clo))
(D:\Compiler\texmf\tex\latex\graphics\graphicx.sty
(D:\Compiler\texmf\tex\latex\graphics\keyval.sty)
(D:\Compiler\texmf\tex\latex\graphics\graphics.sty
(D:\Compiler\texmf\tex\latex\graphics\trig.sty)
(D:\Compiler\texmf\tex\latex\00miktex\graphics.cfg)
(C:\Users\CRAN\AppData\Roaming\MiKTeX\2.9\tex\xelatex\xetex-def\xetex.def)))
(D:\Compiler\texmf\tex\latex\graphics\color.sty
(D:\Compiler\texmf\tex\latex\00miktex\color.cfg))
(D:\Compiler\texmf\tex\latex\framed\framed.sty)
(D:\Compiler\texmf\tex\latex\base\alltt.sty)
(D:\Compiler\texmf\tex\latex\geometry\geometry.sty
(D:\Compiler\texmf\tex\generic\oberdiek\ifpdf.sty)
(D:\Compiler\texmf\tex\generic\oberdiek\ifvtex.sty)
(D:\Compiler\texmf\tex\generic\ifxetex\ifxetex.sty)
(D:\Compiler\texmf\tex\xelatex\xetexconfig\geometry.cfg))
(D:\Compiler\texmf\tex\latex\hyperref\hyperref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\hobsub-hyperref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\hobsub-generic.sty))
(D:\Compiler\texmf\tex\latex\oberdiek\auxhook.sty)
(D:\Compiler\texmf\tex\latex\oberdiek\kvoptions.sty)
(D:\Compiler\texmf\tex\latex\hyperref\pd1enc.def)
(D:\Compiler\texmf\tex\latex\00miktex\hyperref.cfg)
(C:\Users\CRAN\AppData\Roaming\MiKTeX\2.9\tex\latex\url\url.sty))

Package hyperref Message: Driver (autodetected): hxetex.

(D:\Compiler\texmf\tex\latex\hyperref\hxetex.def
(D:\Compiler\texmf\tex\latex\hyperref\puenc.def)
(D:\Compiler\texmf\tex\generic\oberdiek\stringenc.sty)
(D:\Compiler\texmf\tex\latex\oberdiek\rerunfilecheck.sty))
(D:\Compiler\texmf\tex\latex\caption\caption.sty
(D:\Compiler\texmf\tex\latex\caption\caption3.sty))
(D:\Compiler\texmf\tex\latex\caption\subcaption.sty)
(D:\Compiler\texmf\tex\latex\upquote\upquote.sty)
No file mapmisc.aux.
*geometry* detected driver: pdftex
(D:\Compiler\texmf\tex\latex\hyperref\nameref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\gettitlestring.sty))

Package hyperref Warning: Rerun to get /PageLabels entry.

(D:\Compiler\texmf\tex\generic\oberdiek\se-ascii-print.def) [1]
Overfull \hbox (18.07022pt too wide) in paragraph at lines 179--179
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to

Overfull \hbox (382.3954pt too wide) in paragraph at lines 197--197
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs"[
] 

Overfull \hbox (382.3954pt too wide) in paragraph at lines 203--203
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs"[
] 

Overfull \hbox (22.18146pt too wide) in paragraph at lines 206--208
[]\OT1/cmr/m/n/12 Maps which can be down-loaded are shown at []$\OT1/cmtt/m/n/1
2 http : / / diseasemapping . r-[]forge . r-[]project .
[2]
Overfull \hbox (376.2204pt too wide) in paragraph at lines 244--244
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +datum=WGS84 +units=m +no_defs"[]
 

Overfull \hbox (24.24522pt too wide) in paragraph at lines 271--272
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 273--273
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 283--284
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 285--285
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (42.77023pt too wide) in paragraph at lines 289--289
[][]\OT1/cmtt/m/n/12 plot[][](nldElev,[][]add[][]=[][]TRUE[][],[][]col[][]=[][]
terrain.colors[][]([][]8[][]),[][]alpha[][]=[][]0.6[][],[][]legend.mar[][]=[][]
2[][],[] []legend.line[][]=[][]0[][],)[][] 

Overfull \hbox (24.24522pt too wide) in paragraph at lines 294--295
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 296--296
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back
[3] <use  "figure/simpleMap-1.png" > <use  "figure/simpleMap-2.png" >
<use  "figure/simpleMap-3.png" > [4] <use  "figure/meuseLegends-1.png" >
<use  "figure/meuseLegends-2.png" > <use  "figure/meuseLegends-3.png" >
(\RCompile\recent\R-4.0.5\share\texmf\tex\latex\omscmtt.fd)
Overfull \hbox (5.72021pt too wide) in paragraph at lines 397--398
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(theCentre, crsLL): NULL target CRS
 comment, falling

Overfull \hbox (5.72021pt too wide) in paragraph at lines 399--400
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(theCentreSp, qq): NULL source CRS 
comment, falling

Overfull \hbox (18.07022pt too wide) in paragraph at lines 401--401
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to
[5]
Overfull \hbox (24.24522pt too wide) in paragraph at lines 423--424
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 425--425
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 435--436
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 437--437
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back
[6] <use  "figure/rotatedMap-1.png" > <use  "figure/rotatedMap-2.png" >
Overfull \hbox (18.07022pt too wide) in paragraph at lines 460--461
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL source CRS commen
t, falling back to

Overfull \hbox (18.07022pt too wide) in paragraph at lines 462--462
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to
[7]
Overfull \hbox (24.24522pt too wide) in paragraph at lines 481--482
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 483--484
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 485--485
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xsp, CRSobj = crs(mapOrig)): NULL 
target CRS comment,

Overfull \hbox (24.24522pt too wide) in paragraph at lines 498--499
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 500--501
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 502--502
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xsp, CRSobj = crs(mapOrig)): NULL 
target CRS comment,
<use  "figure/inset-1.png" > <use  "figure/inset-2.png" > [8] [9] (mapmisc.aux)

LaTeX Warning: Label(s) may have changed. Rerun to get cross-references right.

 )
(see the transcript file for additional information)
Output written on mapmisc.pdf (9 pages).
Transcript written on mapmisc.log.
xelatex -interaction=nonstopmode mapmisc.tex
This is XeTeX, Version 3.14159265-2.6-0.99992 (MiKTeX 2.9)
entering extended mode
(mapmisc.tex
LaTeX2e <2016/02/01>
Babel <3.9n> and hyphenation patterns for 69 languages loaded.
(D:\Compiler\texmf\tex\latex\base\article.cls
Document Class: article 2014/09/29 v1.4h Standard LaTeX document class
(D:\Compiler\texmf\tex\latex\base\size12.clo))
(D:\Compiler\texmf\tex\latex\graphics\graphicx.sty
(D:\Compiler\texmf\tex\latex\graphics\keyval.sty)
(D:\Compiler\texmf\tex\latex\graphics\graphics.sty
(D:\Compiler\texmf\tex\latex\graphics\trig.sty)
(D:\Compiler\texmf\tex\latex\00miktex\graphics.cfg)
(C:\Users\CRAN\AppData\Roaming\MiKTeX\2.9\tex\xelatex\xetex-def\xetex.def)))
(D:\Compiler\texmf\tex\latex\graphics\color.sty
(D:\Compiler\texmf\tex\latex\00miktex\color.cfg))
(D:\Compiler\texmf\tex\latex\framed\framed.sty)
(D:\Compiler\texmf\tex\latex\base\alltt.sty)
(D:\Compiler\texmf\tex\latex\geometry\geometry.sty
(D:\Compiler\texmf\tex\generic\oberdiek\ifpdf.sty)
(D:\Compiler\texmf\tex\generic\oberdiek\ifvtex.sty)
(D:\Compiler\texmf\tex\generic\ifxetex\ifxetex.sty)
(D:\Compiler\texmf\tex\xelatex\xetexconfig\geometry.cfg))
(D:\Compiler\texmf\tex\latex\hyperref\hyperref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\hobsub-hyperref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\hobsub-generic.sty))
(D:\Compiler\texmf\tex\latex\oberdiek\auxhook.sty)
(D:\Compiler\texmf\tex\latex\oberdiek\kvoptions.sty)
(D:\Compiler\texmf\tex\latex\hyperref\pd1enc.def)
(D:\Compiler\texmf\tex\latex\00miktex\hyperref.cfg)
(C:\Users\CRAN\AppData\Roaming\MiKTeX\2.9\tex\latex\url\url.sty))

Package hyperref Message: Driver (autodetected): hxetex.

(D:\Compiler\texmf\tex\latex\hyperref\hxetex.def
(D:\Compiler\texmf\tex\latex\hyperref\puenc.def)
(D:\Compiler\texmf\tex\generic\oberdiek\stringenc.sty)
(D:\Compiler\texmf\tex\latex\oberdiek\rerunfilecheck.sty))
(D:\Compiler\texmf\tex\latex\caption\caption.sty
(D:\Compiler\texmf\tex\latex\caption\caption3.sty))
(D:\Compiler\texmf\tex\latex\caption\subcaption.sty)
(D:\Compiler\texmf\tex\latex\upquote\upquote.sty) (mapmisc.aux)
*geometry* detected driver: pdftex
(D:\Compiler\texmf\tex\latex\hyperref\nameref.sty
(D:\Compiler\texmf\tex\generic\oberdiek\gettitlestring.sty)) (mapmisc.out)
(mapmisc.out) (D:\Compiler\texmf\tex\generic\oberdiek\se-ascii-print.def)
[1]
Overfull \hbox (18.07022pt too wide) in paragraph at lines 179--179
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to

Overfull \hbox (382.3954pt too wide) in paragraph at lines 197--197
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs"[
] 

Overfull \hbox (382.3954pt too wide) in paragraph at lines 203--203
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +ellps=bessel +units=m +no_defs"[
] 

Overfull \hbox (22.18146pt too wide) in paragraph at lines 206--208
[]\OT1/cmr/m/n/12 Maps which can be down-loaded are shown at []$\OT1/cmtt/m/n/1
2 http : / / diseasemapping . r-[]forge . r-[]project .
[2]
Overfull \hbox (376.2204pt too wide) in paragraph at lines 244--244
[]\OT1/cmtt/m/n/12 ## [1] "+proj=sterea +lat_0=52.1561605555556 +lon_0=5.387638
88888889 +k=0.9999079 +x_0=155000 +y_0=463000 +datum=WGS84 +units=m +no_defs"[]
 

Overfull \hbox (24.24522pt too wide) in paragraph at lines 271--272
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 273--273
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 283--284
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 285--285
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (42.77023pt too wide) in paragraph at lines 289--289
[][]\OT1/cmtt/m/n/12 plot[][](nldElev,[][]add[][]=[][]TRUE[][],[][]col[][]=[][]
terrain.colors[][]([][]8[][]),[][]alpha[][]=[][]0.6[][],[][]legend.mar[][]=[][]
2[][],[] []legend.line[][]=[][]0[][],)[][] 

Overfull \hbox (24.24522pt too wide) in paragraph at lines 294--295
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 296--296
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back
[3] <use  "figure/simpleMap-1.png" > <use  "figure/simpleMap-2.png" >
<use  "figure/simpleMap-3.png" > [4] <use  "figure/meuseLegends-1.png" >
<use  "figure/meuseLegends-2.png" > <use  "figure/meuseLegends-3.png" >
(\RCompile\recent\R-4.0.5\share\texmf\tex\latex\omscmtt.fd)
Overfull \hbox (5.72021pt too wide) in paragraph at lines 397--398
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(theCentre, crsLL): NULL target CRS
 comment, falling

Overfull \hbox (5.72021pt too wide) in paragraph at lines 399--400
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(theCentreSp, qq): NULL source CRS 
comment, falling

Overfull \hbox (18.07022pt too wide) in paragraph at lines 401--401
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to
[5]
Overfull \hbox (24.24522pt too wide) in paragraph at lines 423--424
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 425--425
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 435--436
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 437--437
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back
[6] <use  "figure/rotatedMap-1.png" > <use  "figure/rotatedMap-2.png" >
Overfull \hbox (18.07022pt too wide) in paragraph at lines 460--461
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL source CRS commen
t, falling back to

Overfull \hbox (18.07022pt too wide) in paragraph at lines 462--462
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(x, crsOut): NULL target CRS commen
t, falling back to
[7]
Overfull \hbox (24.24522pt too wide) in paragraph at lines 481--482
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 483--484
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 485--485
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xsp, CRSobj = crs(mapOrig)): NULL 
target CRS comment,

Overfull \hbox (24.24522pt too wide) in paragraph at lines 498--499
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 500--501
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xpoints, crsLL): NULL target CRS c
omment, falling back

Overfull \hbox (24.24522pt too wide) in paragraph at lines 502--502
[]\OT1/cmtt/m/n/12 ## Warning in spTransform(xsp, CRSobj = crs(mapOrig)): NULL 
target CRS comment,
<use  "figure/inset-1.png" > <use  "figure/inset-2.png" > [8] [9] (mapmisc.aux)
 )
(see the transcript file for additional information)
Output written on mapmisc.pdf (9 pages).
Transcript written on mapmisc.log.
make[1]: Leaving directory '/d/RCompile/CRANpkg/local/4.0/mapmisc.Rcheck/vign_test/mapmisc/vignettes'
make[1]: Entering directory '/d/RCompile/CRANpkg/local/4.0/mapmisc.Rcheck/vign_test/mapmisc/vignettes'
rm -rf *.md *.tex *.toc *.bbl *.blg *.aux *.out *.log *.spl *tikzDictionary *.md figure/ cache/ *.dvi *.4* *.css *.idv *.lg *.tmp *.xref *.gz my*.bib *.nav *.xml *.vrb *.snm 
make[1]: Leaving directory '/d/RCompile/CRANpkg/local/4.0/mapmisc.Rcheck/vign_test/mapmisc/vignettes'
SUMMARY: processing the following file failed:
  'north.Rmd'

Error: Vignette re-building failed.
Execution halted