CRAN Package Check Results for Package pavo

Last updated on 2020-12-09 11:47:38 CET.

Check Details

Version: 2.5.0
Check: Rd cross-references
Result: NOTE
    Undeclared package ‘future’ in Rd xrefs
Flavor: r-devel-linux-x86_64-fedora-clang

Version: 2.5.0
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘pavo-1-overview.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    --- finished re-building ‘pavo-1-overview.Rmd’
    
    --- re-building ‘pavo-2-importing_processing.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Welcome to pavo 2! Take a look at the latest features (and update your bibliography) in our recent publication: Maia R., Gruson H., Endler J. A., White T. E. (2019) pavo 2: new tools for the spectral and spatial analysis of colour in R. Methods in Ecology and Evolution, 10, 1097-1107.
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    --- finished re-building ‘pavo-2-importing_processing.Rmd’
    
    --- re-building ‘pavo-3-analysing.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Welcome to pavo 2! Take a look at the latest features (and update your bibliography) in our recent publication: Maia R., Gruson H., Endler J. A., White T. E. (2019) pavo 2: new tools for the spectral and spatial analysis of colour in R. Methods in Ecology and Evolution, 10, 1097-1107.
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Calculating noise-weighted Euclidean distances and noise-weighted luminance contrasts
    Calculating noise-weighted Euclidean distances
    Calculating noise-weighted Euclidean distances
    Calculating noise-weighted Euclidean distances
    Calculating noise-weighted Euclidean distances
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    wavelengths found in column 1
    processing options applied:
    Scaling spectra to a maximum value of 1
    wavelengths found in column 1
    processing options applied:
    Scaling spectra to a total area of 1
    processing options applied:
    Scaling spectra to a minimum value of zero
    wavelengths found in column 1
    Calculating noise-weighted Euclidean distances and noise-weighted luminance contrasts
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    Using single set of coldists for all images.
    Using single set of hsl values for all images.
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    wavelengths found in column 1
    Calculating noise-weighted Euclidean distances
    Warning in hook_png(before, options, envir, "pngquant", function(x) { :
     cannot find pngquant; please install and put it in PATH
    One or more image matrices are not of class 'rimg'; attempting to coerce.
    --- finished re-building ‘pavo-3-analysing.Rmd’
    
    --- re-building ‘pavo-4-spectraldesc.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    --- finished re-building ‘pavo-4-spectraldesc.Rmd’
    
    --- re-building ‘pavo-5-alphashapes.Rmd’ using rmarkdown
    Warning in engine$weave(file, quiet = quiet, encoding = enc) :
     Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
    Loading required namespace: rmarkdown
    PhantomJS not found. You can install it with webshot::install_phantomjs(). If it is installed, please make sure the phantomjs executable can be found via the PATH variable.
    Warning in normalizePath(f2) :
     path[1]="webshot514919ae7303.png": No such file or directory
    Warning in file(con, "rb") :
     cannot open file 'webshot514919ae7303.png': No such file or directory
    Quitting from lines 99-100 (pavo-5-alphashapes.Rmd)
    Error: processing vignette 'pavo-5-alphashapes.Rmd' failed with diagnostics:
    cannot open the connection
    --- failed re-building ‘pavo-5-alphashapes.Rmd’
    
    SUMMARY: processing the following file failed:
     ‘pavo-5-alphashapes.Rmd’
    
    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-solaris-x86