Last updated on 2026-11-01 11:53:19 CET.
| Flavor | Version | Tinstall | Tcheck | Ttotal | Status | Flags |
|---|---|---|---|---|---|---|
| r-devel-linux-x86_64-debian-clang | 1.0.1 | 17.84 | 89.31 | 107.15 | OK | |
| r-devel-linux-x86_64-debian-gcc | 1.0.1 | 11.87 | 67.76 | 79.63 | OK | |
| r-devel-linux-x86_64-fedora-clang | 1.0.1 | 14.00 | 60.35 | 74.35 | OK | |
| r-devel-linux-x86_64-fedora-gcc | 1.0.1 | 13.00 | 88.06 | 101.06 | OK | |
| r-devel-windows-x86_64 | 1.0.1 | 23.00 | 203.00 | 226.00 | OK | |
| r-patched-linux-x86_64 | 1.0.1 | 14.60 | 79.34 | 93.94 | OK | |
| r-release-linux-x86_64 | 1.0.1 | 16.98 | 51.24 | 68.22 | ERROR | |
| r-release-macos-arm64 | 1.0.1 | 5.00 | 50.00 | 55.00 | OK | |
| r-release-macos-x86_64 | 1.0.1 | 12.00 | 148.00 | 160.00 | OK | |
| r-release-windows-x86_64 | 1.0.1 | 23.00 | 115.00 | 138.00 | OK | |
| r-oldrel-macos-arm64 | 1.0.1 | 3.00 | 49.00 | 52.00 | OK | |
| r-oldrel-macos-x86_64 | 1.0.1 | 12.00 | 143.00 | 155.00 | OK | |
| r-oldrel-windows-x86_64 | 1.0.1 | 26.00 | 145.00 | 171.00 | OK |
Version: 1.0.1
Check: examples
Result: ERROR
Running examples in ‘treestructure-Ex.R’ failed
The error most likely occurred in:
> base::assign(".ptime", proc.time(), pos = "CheckExEnv")
> ### Name: plot.TreeStructure
> ### Title: Plot TreeStructure tree with cluster and partition variables
> ### Aliases: plot.TreeStructure
>
> ### ** Examples
>
>
> #tree <- ape::read.tree( system.file('sim.nwk', package = 'treestructure') )
> # you can run the example below before plotting
> #struc <- trestruct( tree )
>
> #because it can take a minute or so to run treestructure, we will load it here
> struc <- readRDS( system.file('struc_plot_example.rds', package='treestructure') )
> #plot treestructure object
>
> suppressWarnings(plot(struc))
Error in .plot.TreeStructure.ggtree(x, ...) :
"ggtree" %in% utils::installed.packages()[, 1] is not TRUE
Execution halted
Flavor: r-release-linux-x86_64
Version: 1.0.1
Check: re-building of vignette outputs
Result: ERROR
Error(s) in re-building vignettes:
...
--- re-building ‘false_discovery_rate.Rmd’ using rmarkdown
[WARNING] Deprecated: --mathjax. Use --math-method=mathjax[:URL] instead.
--- finished re-building ‘false_discovery_rate.Rmd’
--- re-building ‘supportValues.Rmd’ using rmarkdown
Quitting from supportValues.Rmd:45-49 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'ggtree'
---
Backtrace:
▆
1. └─base::library(ggtree)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'supportValues.Rmd' failed with diagnostics:
there is no package called 'ggtree'
--- failed re-building ‘supportValues.Rmd’
--- re-building ‘treestructure.Rmd’ using rmarkdown
Quitting from treestructure.Rmd:38-42 [unnamed-chunk-1]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `library()`:
! there is no package called 'ggtree'
---
Backtrace:
▆
1. └─base::library(ggtree)
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'treestructure.Rmd' failed with diagnostics:
there is no package called 'ggtree'
--- failed re-building ‘treestructure.Rmd’
--- re-building ‘updating_treestructure.Rmd’ using rmarkdown
Quitting from updating_treestructure.Rmd:70-75 [unnamed-chunk-4]
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
<error/rlang_error>
Error in `.plot.TreeStructure.ggtree()`:
! "ggtree" %in% utils::installed.packages()[, 1] is not TRUE
---
Backtrace:
▆
1. ├─base::plot(trestruct_res, use_ggtree = T)
2. └─treestructure:::plot.TreeStructure(trestruct_res, use_ggtree = T)
3. └─treestructure:::.plot.TreeStructure.ggtree(x, ...)
4. └─base::stopifnot("ggtree" %in% utils::installed.packages()[, 1])
~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
Error: processing vignette 'updating_treestructure.Rmd' failed with diagnostics:
"ggtree" %in% utils::installed.packages()[, 1] is not TRUE
--- failed re-building ‘updating_treestructure.Rmd’
SUMMARY: processing the following files failed:
‘supportValues.Rmd’ ‘treestructure.Rmd’ ‘updating_treestructure.Rmd’
Error: Vignette re-building failed.
Execution halted
Flavor: r-release-linux-x86_64