Package check result: OK

Changes to worse in reverse depends:

Package: Cascade
Check: whether package can be installed
New result: WARNING
  Found the following significant warnings:
    Warning: replacing previous import ‘igraph::circulant’ by ‘magic::circulant’ when loading ‘Cascade’

Package: DiagrammeR
Check: examples
New result: ERROR
  Running examples in ‘DiagrammeR-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: get_leverage_centrality
  > ### Title: Get leverage centrality
  > ### Aliases: get_leverage_centrality
  > 
  > ### ** Examples
  > 
  > # Create a random graph using the
  > # `add_gnm_graph()` function
  > graph <-
  +   create_graph(
  +     directed = FALSE) %>%
  +   add_gnm_graph(
  +     n = 10,
  +     m = 15,
  +     set_seed = 23)
  > 
  > # Get leverage centrality values
  > # for all nodes in the graph
  > graph %>%
  +   get_leverage_centrality()
  Error in `purrr::map()`:
  ℹ In index: 1.
  Caused by error in `igraph::neighbors()`:
  ! `vid` must specify exactly one vertex
  Backtrace:
       ▆
    1. ├─graph %>% get_leverage_centrality()
    2. ├─DiagrammeR::get_leverage_centrality(.)
    3. │ ├─... %>% unlist()
    4. │ └─purrr::map(...)
    5. │   └─purrr:::map_("list", .x, .f, ..., .progress = .progress)
    6. │     ├─purrr:::with_indexed_errors(...)
    7. │     │ └─base::withCallingHandlers(...)
    8. │     ├─purrr:::call_with_cleanup(...)
    9. │     └─DiagrammeR (local) .f(.x[[i]], ...)
   10. │       ├─base::mean(...)
   11. │       └─igraph::neighbors(ig_graph, degree_vals)
   12. │         └─igraph:::neighbors_impl(graph = graph, vid = v, mode = mode)
   13. │           └─cli::cli_abort(...)
   14. │             └─rlang::abort(...)
   15. └─base::unlist(.)
  Execution halted

Package: DiagrammeR
Check: tests
New result: ERROR
    Running ‘testthat.R’ [53s/54s]
  Running the tests in ‘tests/testthat.R’ failed.
  Complete output:
    > # This file is part of the standard setup for testthat.
    > # It is recommended that you do not modify it.
    > #
    > # Where should you do additional test configuration?
    > # Learn more about the roles of various files in:
    > # * https://r-pkgs.org/testing-design.html#sec-tests-files-overview
    > # * https://testthat.r-lib.org/articles/special-files.html
    > 
    > library(testthat)
    > library(DiagrammeR)
    > 
    > test_check("DiagrammeR")
    Saving _problems/test-get_node_calculations-256.R
    [ FAIL 1 | WARN 3 | SKIP 24 | PASS 1796 ]
    
    ══ Skipped tests (24) ══════════════════════════════════════════════════════════
    • On CRAN (24): 'test-add_forward_reverse_edges.R:48:1',
      'test-add_graphs.R:3:1', 'test-add_graphs.R:223:1',
      'test-add_graphs.R:1706:1', 'test-add_nodes_edges_from_table.R:268:1',
      'test-cache_attrs.R:3:1', 'test-colorize_nodes_edges.R:219:1',
      'test-create_combine_nodes.R:3:1', 'test-create_subgraph.R:3:1',
      'test-delete_node_edge.R:255:1',
      'test-get_select_last_nodes_edges_created.R:75:1',
      'test-graph_series.R:323:1', 'test-graph_validation.R:3:1',
      'test-graph_validation.R:234:1', 'test-graph_validation.R:292:1',
      'test-render_graph.R:3:3', 'test-selections.R:1:1',
      'test-set_get_node_edge_attrs.R:236:1', 'test-similarity_measures.R:1:1',
      'test-similarity_measures.R:113:1', 'test-transform_graph.R:98:1',
      'test-transform_graph.R:262:1', 'test-trav_out_until.R:1:1',
      'test-traversals.R:3:1'
    
    ══ Failed tests ════════════════════════════════════════════════════════════════
    ── Error ('test-get_node_calculations.R:255:3'): Getting leverage centrality is possible ──
    <purrr_error_indexed/rlang_error/error/condition>
    Error in `purrr::map(seq_along(degree_vals), function(x) {     mean((degree_vals[x] - degree_vals[igraph::neighbors(ig_graph, degree_vals)])/(degree_vals[x] + degree_vals[igraph::neighbors(ig_graph, degree_vals)])) })`: i In index: 1.
    Caused by error in `igraph::neighbors()`:
    ! `vid` must specify exactly one vertex
    
    [ FAIL 1 | WARN 3 | SKIP 24 | PASS 1796 ]
    Error:
    ! Test failures.
    Execution halted

Package: jewel
Check: examples
New result: ERROR
  Running examples in ‘jewel-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: constructWeights
  > ### Title: Construct weights for _jewel_ minimization problem from prior
  > ###   information on vertices degrees.
  > ### Aliases: constructWeights
  > 
  > ### ** Examples
  > 
  > {
  + K <- 3
  + p <- 50
  + n <- 20
  + data <- generateData_rewire(K = K, p = p, n = n, ncores = 1, verbose = FALSE)
  + G_list_true <- data$Graphs
  + true_degrees <- rowSums(G_list_true[[1]])
  + cut <- sort(true_degrees, decreasing = TRUE)[ceiling(p * 0.03)]
  + apriori_hubs <- ifelse(true_degrees >= cut, 10, 1)
  + W <- constructWeights(apriori_hubs, K = K)
  + }
  Error in rewire_impl(rewire = graph, n = niter, mode = mode) : 
    The value 2.4500000000000002 is not representable as an integer. Invalid value
  Source: rinterface_extra.c:83
  Calls: generateData_rewire ... do_call -> eval -> eval -> <Anonymous> -> rewire_impl
  Execution halted

Package: rgph
Check: examples
New result: ERROR
  Running examples in ‘rgph-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: reeb_graph
  > ### Title: An S3 class and constructors for Reeb graphs
  > ### Aliases: reeb_graph print.reeb_graph format.reeb_graph read_reeb_graph
  > 
  > ### ** Examples
  > 
  > x <- reeb_graph(
  +   values = c(a = 0, b = .4, c = .6, d = 1),
  +   edgelist = rbind( c(1,2), c(1,3), c(2,4), c(3,4))
  + )
  > print(x)
  Reeb graph with 4 vertices and 4 edges on [0,1]:
  1[a] (0.0) -- 2[b] (0.4)
  1[a] (0.0) -- 3[c] (0.6)
  2[b] (0.4) -- 4[d] (1.0)
  3[c] (0.6) -- 4[d] (1.0)
  
  > 
  > t10 <- system.file("extdata", "10_tree_iterations.txt", package = "rgph")
  > ( y <- read_reeb_graph(t10) )
  Reeb graph with 41 vertices and 40 edges on [0,152.2565]:
   1 ( 0.000000) --  2 ( 1.386294)
   1 ( 0.000000) -- 14 (36.946803)
   2 ( 1.386294) --  3 ( 3.295837)
   3 ( 3.295837) --  4 ( 5.545177)
   3 ( 3.295837) --  5 ( 8.047190)
   4 ( 5.545177) --  6 (10.750557)
   6 (10.750557) --  7 (13.621371)
   7 (13.621371) --  9 (19.775021)
   7 (13.621371) --  8 (16.635532)
   8 (16.635532) -- 18 (52.026692)
   9 (19.775021) -- 10 (23.025851)
  10 (23.025851) -- 11 (26.376848)
  ...
  > 
  > reeb_graph_pairs(x, method = "multi_pass")
  Error in .jnew(pairing_java_object) : 
    java.lang.UnsupportedClassVersionError: usf/saav/cmd/MergePairingCLI has been compiled by a more recent version of the Java Runtime (class file version 69.0), this version of the Java Runtime only recognizes class file versions up to 65.0
  Calls: reeb_graph_pairs -> reeb_graph_pairs.reeb_graph -> .jnew
  Execution halted

Package: rgph
Check: re-building of vignette outputs
New result: ERROR
  Error(s) in re-building vignettes:
    ...
  --- re-building ‘benchmark.Rmd’ using rmarkdown
  
  Quitting from benchmark.Rmd:32-38 [example calculation]
  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  <error/rlang_error>
  Error in `.jnew()`:
  ! java.lang.UnsupportedClassVersionError: usf/saav/cmd/MergePairingCLI has been compiled by a more recent version of the Java Runtime (class file version 69.0), this version of the Java Runtime only recognizes class file versions up to 65.0
  ---
  Backtrace:
      ▆
   1. ├─rgph::reeb_graph_pairs(ex_reeb, method = "multi_pass")
   2. └─rgph:::reeb_graph_pairs.reeb_graph(ex_reeb, method = "multi_pass")
   3.   └─rJava::.jnew(pairing_java_object)
  ~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~~
  
  Error: processing vignette 'benchmark.Rmd' failed with diagnostics:
  java.lang.UnsupportedClassVersionError: usf/saav/cmd/MergePairingCLI has been compiled by a more recent version of the Java Runtime (class file version 69.0), this version of the Java Runtime only recognizes class file versions up to 65.0
  --- failed re-building ‘benchmark.Rmd’
  
  SUMMARY: processing the following file failed:
    ‘benchmark.Rmd’
  
  Error: Vignette re-building failed.
  Execution halted

Package: rgph
Check: tests
New result: ERROR
    Running ‘tinytest.R’ [1s/1s]
  Running the tests in ‘tests/tinytest.R’ failed.
  Complete output:
    > if (requireNamespace("tinytest", quietly = TRUE)) {
    +   tinytest::test_package("rgph")
    + }
    Loading required package: rJava
    Loading required package: phutil
    
    test-as-reeb-graph.R..........    2 tests OK 
    test-as-reeb-graph.R..........    4 tests OK 
    test-as-reeb-graph.R..........    6 tests OK 
    test-as-reeb-graph.R..........    9 tests OK 
    test-as-reeb-graph.R..........   12 tests OK 
    test-as-reeb-graph.R..........   12 tests OK 
    test-as-reeb-graph.R..........   12 tests OK 
    test-as-reeb-graph.R..........   12 tests OK 
    test-as-reeb-graph.R..........   16 tests OK 
    test-as-reeb-graph.R..........   20 tests OK 0.5s
    Error in .jnew(pairing_java_object) : 
      java.lang.UnsupportedClassVersionError: usf/saav/cmd/PPPairingCLI has been compiled by a more recent version of the Java Runtime (class file version 69.0), this version of the Java Runtime only recognizes class file versions up to 65.0
    Calls: <Anonymous> ... reeb_graph_pairs -> reeb_graph_pairs.reeb_graph -> .jnew
    Execution halted

Package: rSpectral
Check: tests
New result: ERROR
    Running ‘testthat.R’ [2s/3s]
  Running the tests in ‘tests/testthat.R’ failed.
  Complete output:
    > # This file is part of the standard setup for testthat.
    > # It is recommended that you do not modify it.
    > #
    > # Where should you do additional test configuration?
    > # Learn more about the roles of various files in:
    > # * https://r-pkgs.org/tests.html
    > # * https://testthat.r-lib.org/reference/test_package.html#special-files
    > 
    > library(testthat)
    > library(rSpectral)
    > 
    > test_check("rSpectral")
    Loading required package: BiocGenerics
    Loading required package: generics
    
    Attaching package: 'generics'
    
    The following objects are masked from 'package:base':
    
        as.difftime, as.factor, as.ordered, intersect, is.element, setdiff,
        setequal, union
    
    
    Attaching package: 'BiocGenerics'
    
    The following objects are masked from 'package:stats':
    
        IQR, mad, sd, var, xtabs
    
    The following objects are masked from 'package:base':
    
        Filter, Find, Map, Position, Reduce, anyDuplicated, aperm, append,
        as.data.frame, basename, cbind, colnames, dirname, do.call,
        duplicated, eval, evalq, get, grep, grepl, is.unsorted, lapply,
        mapply, match, mget, order, paste, pmax, pmax.int, pmin, pmin.int,
        rank, rbind, rownames, sapply, saveRDS, table, tapply, unique,
        unsplit, which.max, which.min
    
    This graph was created by an old(er) igraph version.
    i Call `igraph::upgrade_graph()` on it to use with the current igraph version.
    For now we convert it on the fly...
    Saving _problems/test-igraph-19.R
    Saving _problems/test-igraph-26.R
    [ FAIL 2 | WARN 4 | SKIP 0 | PASS 10 ]
    
    ══ Failed tests ════════════════════════════════════════════════════════════════
    ── Failure ('test-igraph.R:19:3'): membership fix_neig=0 is correct ────────────
    Expected `c$modularity` to equal `exp_mod10`.
    Differences:
      `actual`: 0.432
    `expected`: 0.408
    
    ── Failure ('test-igraph.R:26:3'): membership fix_neig=1 is correct ────────────
    Expected `c$modularity` to equal `exp_mod11`.
    Differences:
      `actual`: 0.3758
    `expected`: 0.3776
    
    
    [ FAIL 2 | WARN 4 | SKIP 0 | PASS 10 ]
    Error:
    ! Test failures.
    Execution halted

Package: sfnetworks
Check: tests
New result: ERROR
    Running ‘testthat.R’ [20s/20s]
  Running the tests in ‘tests/testthat.R’ failed.
  Complete output:
    > library(testthat)
    > library(sfnetworks)
    > 
    > test_check("sfnetworks")
    Saving _problems/test_paths-45.R
    [ FAIL 1 | WARN 0 | SKIP 0 | PASS 276 ]
    
    ══ Failed tests ════════════════════════════════════════════════════════════════
    ── Error ('test_paths.R:41:3'): Only the first from argument
              is used for shortest paths calculations ──
    Error in `all_shortest_paths(x, from, to, weights = weights, ...)`: `from` must specify exactly one vertex
    Backtrace:
         ▆
      1. ├─testthat::expect_warning(...) at test_paths.R:41:3
      2. │ └─testthat:::quasi_capture(...)
      3. │   ├─testthat (local) .capture(...)
      4. │   │ └─base::withCallingHandlers(...)
      5. │   └─rlang::eval_bare(quo_get_expr(.quo), quo_get_env(.quo))
      6. ├─sfnetworks::st_network_paths(...)
      7. └─sfnetworks:::st_network_paths.sfnetwork(...)
      8.   └─sfnetworks:::get_all_shortest_paths(...)
      9.     └─igraph::all_shortest_paths(x, from, to, weights = weights, ...)
     10.       └─igraph:::get_all_shortest_paths_dijkstra_impl(...)
     11.         └─cli::cli_abort(...)
     12.           └─rlang::abort(...)
    
    [ FAIL 1 | WARN 0 | SKIP 0 | PASS 276 ]
    Error:
    ! Test failures.
    Execution halted

Package: tmap.networks
Check: examples
New result: ERROR
  Running examples in ‘tmap.networks-Ex.R’ failed
  The error most likely occurred in:
  
  > base::assign(".ptime", proc.time(), pos = "CheckExEnv")
  > ### Name: tm_edges
  > ### Title: Map layer: edges of a (sf)network
  > ### Aliases: tm_edges opt_tm_edges
  > 
  > ### ** Examples
  > 
  > library(tmap)
  > library(sfnetworks)
  > 
  > sfn = as_sfnetwork(roxel)
  > 
  > tm_shape(sfn) +
  + 	tm_network()
  Error in tmapGetShapeMeta1.sfnetwork(shp, layer, c(o, tmg$tmf)) : 
    unused argument (c(o, tmg$tmf))
  Calls: <Anonymous> ... step1_rearrange_facets -> lapply -> FUN -> tmapGetShapeMeta1
  Execution halted

Package: tmap.networks
Check: S3 generic/method consistency
New result: WARNING
  tmapGetShapeMeta1:
    function(shp, layer, o)
  tmapGetShapeMeta1.sfnetwork:
    function(shp, o)
  
  tmapShape:
    function(shp, is.main, crs, bbox, unit, filter, layer, shp_name,
             smeta, o, tmf)
  tmapShape.sfnetwork:
    function(shp, is.main, crs, bbox, unit, filter, shp_name, smeta, o,
             tmf)
  See section ‘Generic functions and methods’ in the ‘Writing R
  Extensions’ manual.