CRAN Package Check Results for Package treeman

Last updated on 2019-10-22 01:49:41 CEST.

Flavor Version Tinstall Tcheck Ttotal Status Flags
r-devel-linux-x86_64-debian-clang 1.1.3 7.66 68.95 76.61 OK
r-devel-linux-x86_64-debian-gcc 1.1.3 6.51 54.09 60.60 OK
r-devel-linux-x86_64-fedora-clang 1.1.3 91.77 OK
r-devel-linux-x86_64-fedora-gcc 1.1.3 89.52 OK
r-devel-windows-ix86+x86_64 1.1.3 15.00 165.00 180.00 OK
r-patched-linux-x86_64 1.1.3 6.22 67.78 74.00 OK
r-patched-solaris-x86 1.1.3 129.00 OK
r-release-linux-x86_64 1.1.3 7.31 69.05 76.36 OK
r-release-windows-ix86+x86_64 1.1.3 21.00 123.00 144.00 ERROR
r-release-osx-x86_64 1.1.3 OK
r-oldrel-windows-ix86+x86_64 1.1.3 12.00 105.00 117.00 OK
r-oldrel-osx-x86_64 1.1.3 OK

Check Details

Version: 1.1.3
Check: running tests for arch ‘x64’
Result: ERROR
     Running 'test-all.R' [20s]
    Running the tests in 'tests/test-all.R' failed.
    Complete output:
     > library(testthat)
     > test_check("treeman")
     Loading required package: treeman
     [4] in treelst is not a TreeMan object
     These nodes are invalid:
     n5, n7, t8
    
     These nodes are invalid:
     t5
    
     Root node `x` not in ndlst
    
     These nodes are invalid:
     n3
    
     These nodes are invalid:
     n3
    
     Formal class 'TreeMan' [package "treeman"] with 17 slots
     ..@ ndlst :List of 19
     ..@ nds : chr [1:9] "n1" "n2" "n3" "n4" ...
     ..@ nnds : int 9
     ..@ tips : chr [1:10] "t1" "t10" "t2" "t3" ...
     ..@ ntips : int 10
     ..@ all : chr [1:19] "n1" "n2" "n3" "n4" ...
     ..@ nall : int 19
     ..@ pd : num 9.04
     ..@ wspn : logi TRUE
     ..@ wtxnyms : logi FALSE
     ..@ ply : logi FALSE
     ..@ updtd : logi TRUE
     ..@ ndmtrx : NULL
     ..@ tinds : int [1:10] 10 11 12 13 14 15 16 17 18 19
     ..@ prinds : num [1:19] 1 1 1 2 3 5 6 2 3 9 ...
     ..@ root : chr "n1"
     ..@ othr_slt_nms: logi(0)
     [1] "TreeMan Object of [10] tips"
     Tree (TreeMan Object):
     + 10 tips
     + 9 internal nodes
     + With node matrix
     + Binary
     + PD 8.62
     + Root node is "n1"
     -- 1. Error: rmClade() works (@test-manip-methods.R#153) ----------------------
     Invalid margin
     1: getAge(t2) at testthat/test-manip-methods.R:153
     2: .getTreeAgeFrmMtrx(tree@ndmtrx, all_ids, tids, spns, parallel)
     3: .getNdsPrdstsFrmMtrx(ndmtrx, all_ids, tids, spns, parallel = parallel, progress = "none")
     4: plyr::adply(ndmtrx[, all_ids %in% ids], .margins = 2, .fun = .get, .parallel = parallel,
     .progress = progress)
     5: splitter_a(.data, .margins, .expand, .id)
     6: stop("Invalid margin")
    
     Node (internal node):
     + ID: "n9"
     + prid: "n8"
     + ptid: "t2", "t10"
     + nkids: 2
     + spn: 0.92
     + predist: 4.3
     + pd: 0.62
     Tree (TreeMan Object):
     + 10 tips
     + 9 internal nodes
     + Binary
     + PD 6.73
     + Root node is "n1"
     + With additional node slots:
     [binary_val]
     Tree (TreeMan Object):
     + 10 tips
     + 9 internal nodes
     + Binary
     + PD 8.53
     + Root node is "n1"
     [1] "TreeMen Object of [3] trees"
     TreeMen Object of [3] trees== testthat results ===========================================================
     [ OK: 244 | SKIPPED: 7 | WARNINGS: 3 | FAILED: 1 ]
     1. Error: rmClade() works (@test-manip-methods.R#153)
    
     Error: testthat unit tests failed
     Execution halted
Flavor: r-release-windows-ix86+x86_64