Open teng-gao opened 7 months ago
Hi, I have a graph G_m that looks like this:
G_m
IGRAPH baf9167 D--- 4 3 -- + attr: last_mut (v/c), .orig_data (v/x), .tidygraph_node_index (v/x), | label (v/c), id (v/n), node (v/c), GT (v/c), clone (v/n), | .tidygraph_edge_index (e/x), .orig_data (e/x), label (e/c), | from_label (e/c), to_label (e/c), from_node (e/c), to_node (e/c) + edges from baf9167: [1] 1->2 2->3 2->4
When I do:
G_m %>% as_tbl_graph %>% mutate(rank = dfs_rank(root = 3))
Output:
# A tbl_graph: 4 nodes and 3 edges # # A rooted tree # # Node Data: 4 × 9 (active) last_mut .orig_data .tidygraph_node_index label id node GT clone rank <chr> <list> <list> <chr> <int> <chr> <chr> <int> <int> 1 "" <tibble> <int [609]> "" 1 NA "" 1 NA 2 "10a,6e,… <tibble> <int [2]> "10a… 2 Node… "10a… 2 NA 3 "10c,6a,… <tibble> <int [610]> "10c… 3 Node3 "10a… 3 NA 4 "15a,4d,… <tibble> <int [972]> "15a… 4 Node4 "10a… 4 NA # # Edge Data: 3 × 9 from to .tidygraph_edge_index .orig_data label from_label to_label <int> <int> <list> <list> <chr> <chr> <chr> 1 1 2 <int [2]> <tibble [2 × 5]> ->10a,… "" 10a,6e,… 2 2 3 <int [2]> <tibble [2 × 5]> 10a,6e… "10a,6e,1… 10c,6a,… 3 2 4 <int [2]> <tibble [2 × 5]> 10a,6e… "10a,6e,1… 15a,4d,… # ℹ 2 more variables: from_node <chr>, to_node <chr>
I think the correct output should be rank = 1 for row 3 (the root node itself should be accessible via dfs). If I use base igraph dfs
igraph::dfs(G_m, root = 3, unreachable = F)
I get:
$order + 1/4 vertex, from baf9167: [1] 3
This wasn't an issue in tidygraph_1.2.3.
tidygraph_1.2.3
> sessionInfo() R version 4.3.1 (2023-06-16) Platform: x86_64-pc-linux-gnu (64-bit) Running under: Ubuntu 20.04.6 LTS Matrix products: default BLAS: /usr/lib/x86_64-linux-gnu/atlas/libblas.so.3.10.3 LAPACK: /usr/lib/x86_64-linux-gnu/atlas/liblapack.so.3.10.3; LAPACK version 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=en_US.UTF-8 LC_MESSAGES=en_US.UTF-8 [7] LC_PAPER=en_US.UTF-8 LC_NAME=C [9] LC_ADDRESS=C LC_TELEPHONE=C [11] LC_MEASUREMENT=en_US.UTF-8 LC_IDENTIFICATION=C time zone: America/New_York tzcode source: system (glibc) attached base packages: [1] stats graphics grDevices utils datasets methods base other attached packages: [1] igraph_2.0.2 tidygraph_1.3.1 dplyr_1.1.3 loaded via a namespace (and not attached): [1] tidyr_1.3.0 utf8_1.2.4 R6_2.5.1 tidyselect_1.2.0 [5] magrittr_2.0.3 glue_1.6.2 tibble_3.2.1 pkgconfig_2.0.3 [9] generics_0.1.3 lifecycle_1.0.3 cli_3.6.1 fansi_1.0.5 [13] vctrs_0.6.4 compiler_4.3.1 tools_4.3.1 purrr_1.0.2 [17] pillar_1.9.0 rlang_1.1.1
Hi, I have a graph
G_mthat looks like this:When I do:
Output:
I think the correct output should be rank = 1 for row 3 (the root node itself should be accessible via dfs). If I use base igraph dfs
I get:
This wasn't an issue in
tidygraph_1.2.3.