On 2025-07-03 5:57 p.m., Sharon Bewick wrote:
1. I�m trying to upload my R package. However, I use the ape function
seq_root2tip but for the sake of speed am calling it using .Call:
toroot<-.Call(seq_root2tip, nt$edge, length(nt$tip.label), nt$Nnode)
How do I get R to recognize the seq_root2tip function from ape in this C call?
It is throwing up a NOTE that is getting my package rejected:
shade_branch: no visible binding for global variable �seq_root2tip�
If ape doesn't export seq_root2tip, then you shouldn't use it. Use
whatever function ape exported.
but seq_root2tip is a function, not a global variable.
In R, most functions are objects, there isn't really a distinction
between variables and functions.
2. I�m also getting a NOTE about: no visible global function definition for
�phy_tree<-�
I have declared phy_tree in the NAMESPACE file: importFrom(phyloseq,phy_tree)
I don�t know what the problem is�
"phy_tree" and "phy_tree<-" are two different functions. Import both of
them (if both are exported).
Duncan Murdoch
Thanks!
Sharon
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