search

clagiamba / moloc

32 stars 5 forks source link

error: could not find function "coloc.abf #2

Closed psychrb closed 4 years ago

psychrb commented 4 years ago

In running coloc.genome, error received: Error in { : task 1 failed - "could not find function "coloc.abf" How to resolve?

Error even for running sample: res<-coloc.genome(data_genome,bed,prefix="pref",save.SNP.info=FALSE, cores=20, have_alleles=TRUE, bychrpos=TRUE, prior_var="default", priors=c(1e-04, 1e-06, 1e-07), min_nsnps = 50, takelog = FALSE, write=TRUE, outfolder = "test", forcePVAL = FALSE)

Running in parallel Looping through 231 regions Error in { : task 1 failed - "could not find function "coloc.abf""

psychrb commented 4 years ago

Using R3.6.3

bkupmc commented 4 years ago

Ran into the same problem. A search showed that coloc.abf is part of package coloc.

Solution is to download coloc from CRAN and load this library as well.

Best

psychrb commented 4 years ago

This doesn't solve the problem. When I load library(coloc), I get the very same error... Error in { : task 1 failed - "could not find function "coloc.abf"" Loaded libraries: library(moloc) library(knitr) library(coloc) library(mvtnorm) library(foreach) library(doParallel) library(data.table) library(rmarkdown) library(testthat)

bkupmc commented 4 years ago

Can you see if coloc.abf can be found in help, just to make sure that it is loaded?

psychrb commented 4 years ago

Great! Thanks! Resolved! library(snpStats) also needed...