ordination Error - “veg_distance” not available for .C() for package “vegan”

[giriarteS]

I am getting the following error with the ordination function:
ord.res <- ordination(psN, which_distance = "bray", method = "NMDS",grouping_column = "Treatment", pvalue.cutoff=0.05)

Error in .C("veg_distance", x = as.double(x), nr = N, nc = ncol(x), d = double(N * : "veg_distance" not available for .C() for package "vegan"

Below are the package versions:

R version 3.4.1 (2017-06-30)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS High Sierra 10.13.6

packageVersion('microbiomeSeq')
packageVersion('phyloseq')
packageVersion('vegan')

[1] ‘0.1’
[1] ‘1.22.3’
[1] ‘2.5.4’

Thanks

[AlfredUg]

Heya @giriarteS,

This issue is about the conflicts between phyloseq and vegan. The common work around is re-installing phyloseq from source.

library("devtools")
install_github("joey711/phyloseq")

You can follow the discussion about this here.

Hope that helps.

[giriarteS]

Thanks!!!