'How to export multiple function or packages in foreach loop in "R"
I'm trying to decrease run time of my code by using doParallel
package in R.
I'm calling a function awareRateSIR
that some extra packages are used in the body of this function. I get some error like
could not find function "vcount" and..
I know vcount
is a function of package igraph
that is used in awareRateSIR
) but it's not the only one. How can I solve this problem? I've thought I should pass all packages name that is used in my function awareRateSIR
but I don't know how I cant export multiple function in foreach
or how I can export multiple package name.
This is my code:
tp<-foreach(i=1:iter, .inorder = FALSE, .export = "awareRateSIR",
.packages = "igraph", .packages="doParallel")%dopar%{
tp <- awareRateSIR(graphContact, graphCom,state)
return(tp)
}
if I don't pass these packages I will get error states some function are unknown if I pass all the packages I will get error:
Error in foreach(i = 1:iter, .inorder = FALSE, .export = "awareRateSIR", : formal argument ".packages" matched by multiple actual arguments"
thanks in advance
Solution 1:[1]
You should pass all the packages required, using c
function, as below :
tp<-foreach(i=1:iter, .inorder = FALSE, .export = "awareRateSIR",
.packages = c("igraph", "doParallel"))%dopar%{
tp <- awareRateSIR(graphContact, graphCom,state)
return(tp)
}
Solution 2:[2]
Usually, you don't need to export any variable, function or package when using foreach.
For variables and functions, they just need to be in the same environment as the foreach
statement (the better is to make a function where you pass only what you need).
When functions are required from other packages, you just need to use package::function
, like inside packages.
E.g. you can do
library(doParallel)
registerDoParallel(cl <- makeCluster(3))
df <- iris
foreach(spec = unique(iris$Species)) %dopar% {
dplyr::filter(df, Species == !!spec)
}
stopCluster(cl)
Sources
This article follows the attribution requirements of Stack Overflow and is licensed under CC BY-SA 3.0.
Source: Stack Overflow
Solution | Source |
---|---|
Solution 1 | Kumar Manglam |
Solution 2 |