CRAN Package Check Results for Package RRphylo

Last updated on 2020-08-07 01:49:59 CEST.

Flavor	Version	T_install	T_check	T_total	Status
r-devel-linux-x86_64-debian-clang	2.4.7	23.17	352.82	375.99	OK
r-devel-linux-x86_64-debian-gcc	2.4.7	18.44	257.43	275.87	OK
r-devel-linux-x86_64-fedora-clang	2.4.7			442.72	OK
r-devel-linux-x86_64-fedora-gcc	2.4.7			432.31	OK
r-devel-windows-ix86+x86_64	2.4.7	64.00	461.00	525.00	OK
r-patched-linux-x86_64	2.4.7	21.82	339.66	361.48	OK
r-patched-solaris-x86	2.4.7			966.20	WARN
r-release-linux-x86_64	2.4.7	22.81	340.01	362.82	OK
r-release-macos-x86_64	2.4.7				WARN
r-release-windows-ix86+x86_64	2.4.7	61.00	483.00	544.00	OK
r-oldrel-macos-x86_64	2.4.7				WARN
r-oldrel-windows-ix86+x86_64	2.4.7	33.00	405.00	438.00	OK

Check Details

Version: 2.4.7
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
     ...
    --- re-building ‘RRphylo.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 package: ape
    Loading required package: kableExtra
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘RRphylo.Rmd’

    --- re-building ‘overfitRR.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 package: RRphylo
    Loading required package: emmeans
    --- finished re-building ‘overfitRR.Rmd’

    --- re-building ‘scaleTree.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 package: maps
    --- finished re-building ‘scaleTree.Rmd’

    --- re-building ‘search.conv.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]="webshot28244a61525a.png": No such file or directory
    Warning in file(con, "rb") :
     cannot open file 'webshot28244a61525a.png': No such file or directory
    Quitting from lines 225-302 (search.conv.Rmd)
    Error: processing vignette 'search.conv.Rmd' failed with diagnostics:
    cannot open the connection
    --- failed re-building ‘search.conv.Rmd’

    --- re-building ‘search.shift.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    Loading required package: scales

    Attaching package: 'scales'

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

     rescale

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

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

     rescale

    Loading required package: RColorBrewer
    --- finished re-building ‘search.shift.Rmd’

    --- re-building ‘search.trend.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 package: ape
    Loading required package: geiger
    Loading required package: phytools
    Loading required package: maps
    Loading required package: ddpcr

    Attaching package: 'ddpcr'

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

     step

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

    --- finished re-building ‘search.trend.Rmd’

    --- re-building ‘swapONE.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘swapONE.Rmd’

    SUMMARY: processing the following file failed:
     ‘search.conv.Rmd’

    Error: Vignette re-building failed.
    Execution halted
Flavor: r-patched-solaris-x86

Version: 2.4.7
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘RRphylo.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 package: ape
    Loading required package: kableExtra
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘RRphylo.Rmd’

    --- re-building ‘overfitRR.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 package: RRphylo
    Loading required package: emmeans
    --- finished re-building ‘overfitRR.Rmd’

    --- re-building ‘scaleTree.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 package: maps
    --- finished re-building ‘scaleTree.Rmd’

    --- re-building ‘search.conv.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]="webshot316d23723d6c.png": No such file or directory
    Warning in file(con, "rb") :
     cannot open file 'webshot316d23723d6c.png': No such file or directory
    Quitting from lines 225-302 (search.conv.Rmd)
    Error: processing vignette 'search.conv.Rmd' failed with diagnostics:
    cannot open the connection
    --- failed re-building ‘search.conv.Rmd’

    --- re-building ‘search.shift.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    Loading required package: scales

    Attaching package: 'scales'

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

     rescale

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

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

     rescale

    Loading required package: RColorBrewer
    --- finished re-building ‘search.shift.Rmd’

    --- re-building ‘search.trend.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 package: ape
    Loading required package: geiger
    Loading required package: phytools
    Loading required package: maps
    Loading required package: ddpcr

    Attaching package: 'ddpcr'

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

     step

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

    --- finished re-building ‘search.trend.Rmd’

    --- re-building ‘swapONE.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘swapONE.Rmd’

    SUMMARY: processing the following file failed:
     ‘search.conv.Rmd’

    Error: Vignette re-building failed.
    Execution halted
Flavor: r-release-macos-x86_64

Version: 2.4.7
Check: re-building of vignette outputs
Result: WARN
    Error(s) in re-building vignettes:
    --- re-building ‘RRphylo.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 package: ape
    Loading required package: kableExtra
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘RRphylo.Rmd’

    --- re-building ‘overfitRR.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 package: RRphylo
    Loading required package: emmeans
    --- finished re-building ‘overfitRR.Rmd’

    --- re-building ‘scaleTree.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 package: maps
    --- finished re-building ‘scaleTree.Rmd’

    --- re-building ‘search.conv.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]="webshot175a84adf74cc.png": No such file or directory
    Warning in file(con, "rb") :
     cannot open file 'webshot175a84adf74cc.png': No such file or directory
    Quitting from lines 225-302 (search.conv.Rmd)
    Error: processing vignette 'search.conv.Rmd' failed with diagnostics:
    cannot open the connection
    --- failed re-building ‘search.conv.Rmd’

    --- re-building ‘search.shift.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    Loading required package: scales

    Attaching package: 'scales'

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

     rescale

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

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

     rescale

    Loading required package: RColorBrewer
    --- finished re-building ‘search.shift.Rmd’

    --- re-building ‘search.trend.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 package: ape
    Loading required package: geiger
    Loading required package: phytools
    Loading required package: maps
    Loading required package: ddpcr

    Attaching package: 'ddpcr'

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

     step

    Loading required package: kableExtra
    Loading required package: plotrix

    Attaching package: 'plotrix'

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

     rescale

    --- finished re-building ‘search.trend.Rmd’

    --- re-building ‘swapONE.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 package: ape
    Loading required package: phytools
    Loading required package: maps
    Loading required package: geiger
    --- finished re-building ‘swapONE.Rmd’

    SUMMARY: processing the following file failed:
     ‘search.conv.Rmd’

    Error: Vignette re-building failed.
    Execution halted
Flavor: r-oldrel-macos-x86_64