Error in eval(call("force", as.symbol(paste0("..", x))))

joey711 / phyloseq

phyloseq is a set of classes, wrappers, and tools (in R) to make it easier to import, store, and analyze phylogenetic sequencing data; and to reproducibly share that data and analysis with others. See the phyloseq front page:

http://joey711.github.io/phyloseq/

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Error in eval(call("force", as.symbol(paste0("..", x)))) #1736

Closed fconstancias closed 3 months ago

fconstancias commented 3 months ago

Hello there,

I have been working with phyloseq for a while now. I have recently installed phyloseq on a new Mac M2 and I am now facing the issues described with the example below:

BiocManager::install("phyloseq", force = TRUE)
require(phyloseq)
data(GlobalPatterns)
GlobalPatterns
phyloseq-class experiment-level object
Error in eval(call("force", as.symbol(paste0("..", x)))) : 
  argument "..2" is missing, with no default

ANy idea what is going on here?

Thanks

ycl6 commented 3 months ago

Hi @fconstancias

The error message seems to be originated from the glue_data function from the glue package.

https://github.com/tidyverse/glue/blob/9f88e2179fc7aa6ff11214271fd61bba169f925c/R/glue.R#L116-L127

I don't see glue as one of phyloseq's dependencies. So I am wondering if it is another package required by phyloseq but wasn't installed properly.

fconstancias commented 3 months ago

Thanks for your help. It seems restarting R after the installation solved the issue...

cckeneally commented 3 months ago

Currently having the same issue, restart does not fix