Error in MRCA function

[jonbra]

Hi,

I'm trying to view a subclade using the viewClade() function following your example. But MRCA throws an error. I installed the dev version of ggtree.

library(ggtree)
nwk <- system.file("extdata", "sample.nwk", package="treeio")
tree <- read.tree(nwk)
p <- ggtree(tree) + geom_tiplab()
viewClade(p, MRCA(p, tip=c("I", "L")))

Error in MRCA(.data$data, .node1, .node2 = .node2, ...) : 
  argument ".node1" is missing, with no default
In addition: Warning messages:
1: In get_clade_position_(treeview$data, node) :
  restarting interrupted promise evaluation
2: In get_clade_position_(treeview$data, node) :
  restarting interrupted promise evaluation
3: In get_clade_position_(treeview$data, node) :
  restarting interrupted promise evaluation

session info:

> sessionInfo()
R version 4.1.2 (2021-11-01)
Platform: x86_64-pc-linux-gnu (64-bit)
Running under: Linux Mint 20

Matrix products: default
BLAS:   /usr/lib/x86_64-linux-gnu/blas/libblas.so.3.9.0
LAPACK: /usr/lib/x86_64-linux-gnu/lapack/liblapack.so.3.9.0

locale:
 [1] LC_CTYPE=en_US.UTF-8       LC_NUMERIC=C              
 [3] LC_TIME=en_US.UTF-8        LC_COLLATE=en_US.UTF-8    
 [5] LC_MONETARY=nb_NO.UTF-8    LC_MESSAGES=en_US.UTF-8   
 [7] LC_PAPER=nb_NO.UTF-8       LC_NAME=C                 
 [9] LC_ADDRESS=C               LC_TELEPHONE=C            
[11] LC_MEASUREMENT=nb_NO.UTF-8 LC_IDENTIFICATION=C       

attached base packages:
[1] stats     graphics  grDevices utils     datasets  methods   base     

other attached packages:
[1] ggtree_3.3.1

loaded via a namespace (and not attached):
 [1] Rcpp_1.0.8         pillar_1.7.0       compiler_4.1.2    
 [4] yulab.utils_0.0.4  tools_4.1.2        digest_0.6.29     
 [7] aplot_0.1.2        evaluate_0.14      jsonlite_1.7.3    
[10] tidytree_0.3.7     lifecycle_1.0.1    tibble_3.1.6      
[13] nlme_3.1-155       gtable_0.3.0       lattice_0.20-45   
[16] pkgconfig_2.0.3    rlang_1.0.1        cli_3.1.1         
[19] DBI_1.1.2          ggplotify_0.1.0    rstudioapi_0.13   
[22] patchwork_1.1.1    yaml_2.2.2         parallel_4.1.2    
[25] xfun_0.29          treeio_1.19.1      fastmap_1.1.0     
[28] knitr_1.37         dplyr_1.0.8        generics_0.1.2    
[31] vctrs_0.3.8        gridGraphics_0.5-1 grid_4.1.2        
[34] tidyselect_1.1.1   glue_1.6.1         R6_2.5.1          
[37] fansi_1.0.2        rmarkdown_2.11     pacman_0.5.1      
[40] farver_2.1.0       ggplot2_3.3.5      purrr_0.3.4       
[43] tidyr_1.2.0        magrittr_2.0.2     htmltools_0.5.2   
[46] scales_1.1.1       ellipsis_0.3.2     assertthat_0.2.1  
[49] ape_5.6-1          colorspace_2.0-2   labeling_0.4.2    
[52] utf8_1.2.2         lazyeval_0.2.2     munsell_0.5.0     
[55] ggfun_0.0.5        crayon_1.4.2 

[xiangpin]

Please just use .node1 to replace the tip.

[jonbra]

That works, thanks!