Last updated on 2024-08-25 10:49:04 CEST.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 0.6.8 | 20.57 | 100.62 | 121.19 | NOTE | |
| r-devel-linux-x86_64-debian-gcc | 0.6.8 | 16.60 | 67.12 | 83.72 | NOTE | |
| r-devel-linux-x86_64-fedora-clang | 0.6.8 | 165.80 | ERROR | |||
| r-devel-linux-x86_64-fedora-gcc | 0.6.8 | 174.68 | ERROR | |||
| r-devel-windows-x86_64 | 0.6.8 | 24.00 | 339.00 | 363.00 | NOTE | |
| r-patched-linux-x86_64 | 0.6.8 | 26.29 | 95.75 | 122.04 | NOTE | |
| r-release-linux-x86_64 | 0.6.8 | 20.12 | 96.25 | 116.37 | NOTE | |
| r-release-macos-arm64 | 0.6.8 | 231.00 | NOTE | |||
| r-release-macos-x86_64 | 0.6.8 | 251.00 | NOTE | |||
| r-release-windows-x86_64 | 0.6.8 | 25.00 | 337.00 | 362.00 | NOTE | |
| r-oldrel-macos-arm64 | 0.6.8 | 214.00 | NOTE | |||
| r-oldrel-macos-x86_64 | 0.6.8 | 265.00 | NOTE | |||
| r-oldrel-windows-x86_64 | 0.6.8 | 29.00 | 354.00 | 383.00 | OK |
Version: 0.6.8
Check: package dependencies
Result: NOTE
Package suggested but not available for checking: ‘msa’
Flavors: r-devel-linux-x86_64-debian-clang, r-oldrel-macos-arm64, r-oldrel-macos-x86_64
Version: 0.6.8
Check: Rd files
Result: NOTE
checkRd: (-1) is_datelife_query.Rd:17: Lost braces; missing escapes or markup?
17 | First, that \code{input} is of class {datelifeQuery}.
| ^
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-macos-arm64, r-release-macos-x86_64, r-release-windows-x86_64
Version: 0.6.8
Check: Rd cross-references
Result: NOTE
Found the following Rd file(s) with Rd \link{} targets missing package
anchors:
clean_taxon_info_children.Rd: taxonomy_taxon_info
Please provide package anchors for all Rd \link{} targets not in the
package itself and the base packages.
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-windows-x86_64
Version: 0.6.8
Check: HTML version of manual
Result: NOTE
Found the following HTML validation problems:
get_dated_otol_induced_subtree.html:53:1 (get_dated_otol_induced_subtree.Rd:19): Warning: trimming empty <dt>
get_otol_synthetic_tree.html:67:1 (get_otol_synthetic_tree.Rd:29): Warning: trimming empty <dt>
summary_matrix_to_phylo.html:89:1 (summary_matrix_to_phylo.Rd:42): Warning: trimming empty <dt>
Flavors: r-devel-linux-x86_64-debian-clang, r-devel-linux-x86_64-debian-gcc, r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc, r-devel-windows-x86_64, r-patched-linux-x86_64, r-release-linux-x86_64, r-release-windows-x86_64
Version: 0.6.8
Check: package dependencies
Result: NOTE
Imports includes 22 non-default packages.
Importing from so many packages makes the package vulnerable to any of
them becoming unavailable. Move as many as possible to Suggests and
use conditionally.
Flavor: r-devel-linux-x86_64-fedora-clang
Version: 0.6.8
Check: data for non-ASCII characters
Result: NOTE
Note: found 2596 marked UTF-8 strings
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.6.8
Check: examples
Result: ERROR
Running examples in ‘datelife-Ex.R’ failed
The error most likely occurred in:
> ### Name: get_ott_children
> ### Title: Use this instead of 'rotl::tol_subtree()' when taxa are not in
> ### synthesis tree and you still need to get all species or an induced
> ### OpenTree subtree
> ### Aliases: get_ott_children
>
> ### ** Examples
>
> # An example with the dog genus:
>
> # It is currently not possible to get an OpenTree subtree of a taxon that is
> # missing from the OpenTree synthetic tree.
> # The dog genus is not monophyletic in the OpenTree synthetic tree, so in
> # practice, it has no node to extract a subtree from.
> tnrs <- tnrs_match("Canis")
---> Runnning TNRS to match input names to reference taxonomy (OTT).
Error in curl::curl_fetch_memory(url, handle = handle) :
SSL peer certificate or SSH remote key was not OK: [api.opentreeoflife.org] SSL certificate problem: certificate has expired
Calls: tnrs_match -> tnrs_match.default
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.6.8
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
--- re-building ‘Getting_started_with_datelife.Rmd’ using rmarkdown
--- finished re-building ‘Getting_started_with_datelife.Rmd’
--- re-building ‘fringiliidae.Rmd’ using rmarkdown
--- finished re-building ‘fringiliidae.Rmd’
--- re-building ‘make_datelife_query.Rmd’ using rmarkdown
Quitting from lines 30-31 [unnamed-chunk-2] (make_datelife_query.Rmd)
Error: processing vignette 'make_datelife_query.Rmd' failed with diagnostics:
SSL peer certificate or SSH remote key was not OK: [api.opentreeoflife.org] SSL certificate problem: certificate has expired
--- failed re-building ‘make_datelife_query.Rmd’
--- re-building ‘making_bold_trees.Rmd’ using rmarkdown
--- finished re-building ‘making_bold_trees.Rmd’
SUMMARY: processing the following file failed:
‘make_datelife_query.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavors: r-devel-linux-x86_64-fedora-clang, r-devel-linux-x86_64-fedora-gcc
Version: 0.6.8
Check: installed package size
Result: NOTE
installed size is 5.6Mb
sub-directories of 1Mb or more:
data 3.5Mb
Flavors: r-release-macos-arm64, r-release-macos-x86_64, r-oldrel-macos-arm64, r-oldrel-macos-x86_64