Last updated on 2020-08-07 01:50:04 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.1.3.2 | 45.32 | 363.58 | 408.90 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.1.3.2 | 39.64 | 270.84 | 310.48 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.1.3.2 | 492.94 | NOTE | |||
| r-devel-linux-x86_64-fedora-gcc | 1.1.3.2 | 482.70 | OK | |||
| r-devel-windows-ix86+x86_64 | 1.1.3.2 | 152.00 | 471.00 | 623.00 | NOTE | |
| r-patched-linux-x86_64 | 1.1.3.2 | 36.40 | 349.54 | 385.94 | OK | |
| r-patched-solaris-x86 | 1.1.3.2 | 670.10 | WARN | |||
| r-release-linux-x86_64 | 1.1.3.2 | 32.14 | 349.98 | 382.12 | OK | |
| r-release-macos-x86_64 | 1.1.3.2 | WARN | ||||
| r-release-windows-ix86+x86_64 | 1.1.3.2 | 100.00 | 678.00 | 778.00 | NOTE | |
| r-oldrel-macos-x86_64 | 1.1.3.2 | WARN | ||||
| r-oldrel-windows-ix86+x86_64 | 1.1.3.2 | 76.00 | 454.00 | 530.00 | NOTE |
Version: 1.1.3.2
Check: installed package size
Result: NOTE
installed size is 6.3Mb
sub-directories of 1Mb or more:
doc 4.3Mb
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-windows-ix86+x86_64, r-patched-solaris-x86, r-release-macos-x86_64, r-release-windows-ix86+x86_64, r-oldrel-macos-x86_64, r-oldrel-windows-ix86+x86_64
Version: 1.1.3.2
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
...
--- re-building ‘DengueVignette.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: ape
Loading required package: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
/// adegenet 2.1.3 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:phangorn':
AICc
The following object is masked from 'package:treespace':
.render.server.info
Quitting from lines 137-139 (DengueVignette.Rmd)
Error: processing vignette 'DengueVignette.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘DengueVignette.Rmd’
--- re-building ‘TransmissionTreesVignette.Rmd’ using rmarkdown
Warning in engine$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: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Attaching package: 'igraph'
The following objects are masked from 'package:ape':
edges, mst, ring
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
--- finished re-building ‘TransmissionTreesVignette.Rmd’
--- re-building ‘introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
/// adegenet 2.1.3 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:treespace':
.render.server.info
Attaching package: 'adegraphics'
The following objects are masked from 'package:ade4':
kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
s.label, s.logo, s.match, s.traject, s.value, table.value,
triangle.class
The following object is masked from 'package:ape':
zoom
Quitting from lines 138-139 (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘introduction.Rmd’
--- re-building ‘tipCategories.Rmd’ using rmarkdown
Warning in engine$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: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Loading required package: pander
--- finished re-building ‘tipCategories.Rmd’
SUMMARY: processing the following files failed:
‘DengueVignette.Rmd’ ‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-patched-solaris-x86
Version: 1.1.3.2
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘DengueVignette.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: ape
Loading required package: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
/// adegenet 2.1.3 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:phangorn':
AICc
The following object is masked from 'package:treespace':
.render.server.info
Quitting from lines 137-139 (DengueVignette.Rmd)
Error: processing vignette 'DengueVignette.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘DengueVignette.Rmd’
--- re-building ‘TransmissionTreesVignette.Rmd’ using rmarkdown
Warning in engine$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: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Attaching package: 'igraph'
The following objects are masked from 'package:ape':
edges, mst, ring
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
--- finished re-building ‘TransmissionTreesVignette.Rmd’
--- re-building ‘introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
/// adegenet 2.1.3 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:treespace':
.render.server.info
Attaching package: 'adegraphics'
The following objects are masked from 'package:ade4':
kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
s.label, s.logo, s.match, s.traject, s.value, table.value,
triangle.class
The following object is masked from 'package:ape':
zoom
Quitting from lines 138-139 (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘introduction.Rmd’
--- re-building ‘tipCategories.Rmd’ using rmarkdown
Warning in engine$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: ade4
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Loading required package: pander
--- finished re-building ‘tipCategories.Rmd’
SUMMARY: processing the following files failed:
‘DengueVignette.Rmd’ ‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-macos-x86_64
Version: 1.1.3.2
Check: whether package can be installed
Result: WARN
Found the following significant warnings:
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: dependencies in R code
Result: NOTE
No protocol specified
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: S3 generic/method consistency
Result: WARN
No protocol specified
See section ‘Generic functions and methods’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: replacement functions
Result: WARN
No protocol specified
The argument of a replacement function which corresponds to the right
hand side must be named ‘value’.
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: foreign function calls
Result: NOTE
No protocol specified
See chapter ‘System and foreign language interfaces’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: R code for possible problems
Result: NOTE
No protocol specified
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: for missing documentation entries
Result: WARN
No protocol specified
All user-level objects in a package should have documentation entries.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: for code/documentation mismatches
Result: WARN
No protocol specified
No protocol specified
No protocol specified
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: Rd \usage sections
Result: NOTE
No protocol specified
The \usage entries for S3 methods should use the \method markup and not
their full name.
See chapter ‘Writing R documentation files’ in the ‘Writing R
Extensions’ manual.
Flavor: r-oldrel-macos-x86_64
Version: 1.1.3.2
Check: re-building of vignette outputs
Result: WARN
Error(s) in re-building vignettes:
--- re-building ‘DengueVignette.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
Loading required package: ape
Loading required package: ade4
No protocol specified
Warning in rgl.init(initValue, onlyNULL) :
RGL: unable to open X11 display
Warning: 'rgl_init' failed, running with rgl.useNULL = TRUE
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
/// adegenet 2.1.1 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:phangorn':
AICc
The following object is masked from 'package:treespace':
.render.server.info
Quitting from lines 137-139 (DengueVignette.Rmd)
Error: processing vignette 'DengueVignette.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘DengueVignette.Rmd’
--- re-building ‘TransmissionTreesVignette.Rmd’ using rmarkdown
Warning in engine$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: ade4
No protocol specified
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Attaching package: 'igraph'
The following objects are masked from 'package:ape':
edges, mst, ring
The following objects are masked from 'package:stats':
decompose, spectrum
The following object is masked from 'package:base':
union
--- finished re-building ‘TransmissionTreesVignette.Rmd’
--- re-building ‘introduction.Rmd’ using rmarkdown
Warning in engine$weave(file, quiet = quiet, encoding = enc) :
Pandoc (>= 1.12.3) and/or pandoc-citeproc not available. Falling back to R Markdown v1.
No protocol specified
/// adegenet 2.1.1 is loaded ////////////
> overview: '?adegenet'
> tutorials/doc/questions: 'adegenetWeb()'
> bug reports/feature requests: adegenetIssues()
Attaching package: 'adegenet'
The following object is masked from 'package:treespace':
.render.server.info
Attaching package: 'adegraphics'
The following objects are masked from 'package:ade4':
kplotsepan.coa, s.arrow, s.class, s.corcircle, s.distri, s.image,
s.label, s.logo, s.match, s.traject, s.value, table.value,
triangle.class
The following object is masked from 'package:ape':
zoom
Quitting from lines 138-139 (introduction.Rmd)
Error: processing vignette 'introduction.Rmd' failed with diagnostics:
cannot open the connection
--- failed re-building ‘introduction.Rmd’
--- re-building ‘tipCategories.Rmd’ using rmarkdown
Warning in engine$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: ade4
No protocol specified
Creating a generic function for 'toJSON' from package 'jsonlite' in package 'googleVis'
Loading required package: pander
--- finished re-building ‘tipCategories.Rmd’
SUMMARY: processing the following files failed:
‘DengueVignette.Rmd’ ‘introduction.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-oldrel-macos-x86_64