incorrect number of dimensions

[sbenvari]

Hi,

While running my bugwas script, I encountered an error that I didn't encounter with a different dataset. Here's the code I used:
library(bugwas)
gen<-"/mnt/shared/scratch/sbenvari/bugwas/data/gemma_gen_fileP.txt"
pheno<-"/mnt/shared/scratch/sbenvari/bugwas/data/st131_pheno.txt"
phylo<-"/mnt/shared/scratch/sbenvari/bugwas/data/clean.full.final_tree.tre"
prefix<-"bugwasP"
gem.path <-"/mnt/shared/scratch/sbenvari/apps/conda/bin/gemma"
data <- lin_loc(gen = gen, pheno = pheno, phylo = phylo, prefix = prefix, gem.path = gem.path)

The error message I received is as follows:
Biallelic data processed successfully.
Error in XX[[i]][, 1] : incorrect number of dimensions
Calls: lin_loc -> get_tritetra -> run_lmm_multi -> matrix
Execution halted

Could you please help me resolve this error?