R Session Aborted when using lgb.Dataset.construct() in R

[fabianmax]

Environment info

Operating System: OSX 10.14.3

CPU/GPU model: 2.8 GHz Intel Core i7

C++/Python/R version: R 3.5.1

LightGBM version or commit hash: 2.2.4

Error message

R Session Aborted

Reproducible examples

library(lightgbm)
data(agaricus.train, package = "lightgbm")
train <- agaricus.train
dtrain <- lgb.Dataset(train$data, label = train$label)
lgb.Dataset.construct(dtrain)

Steps to reproduce

I played around with the lgb.train() functions and experienced the same R Session Aborted error while not being sure were the problem was. After checking different params and datasets, I tried to deep dive into the construction of the lgb.Dataset object. So I took the reproducible example from the lightgbm::lgb.Dataset() function's help page (see above) and experienced the same error as before (R Session Aborted).

While I did not not explicitly construct the dataset using lgb.Dataset.construct() before, I currently speculate that the error might be related to this function, instead of the actual model fitting.

[jameslamb]

Thank you for taking the time to open this issue @fabianmax ! I will take a look tonight and see if I can reproduce.

How did you install LightGBM? Did you build from source or use a pre-compiled executable?

[fabianmax]

I build it from source based on https://github.com/Microsoft/LightGBM/tree/master/R-package.

[Laurae2]

Works fine on Windows (VS17, MinGW 4.9) and Linux (gcc 8.2, icc 2019.1):

> library(lightgbm)
Loading required package: R6
> data(agaricus.train, package = "lightgbm")
> train <- agaricus.train
> dtrain <- lgb.Dataset(train$data, label = train$label)
Loading required package: Matrix
> lgb.Dataset.construct(dtrain)
>

Maybe a compiler issue or you might have installed the LightGBM R package over an opened R session which has LightGBM loaded? (and thus the files are immutable while installing and you end up with mixed versions of LightGBM in the R package, therefore crashes)

[jameslamb]

I agree with @Laurae2 , I have also not been able to duplicate this issue. I agree with the suggestion that you should try closing all open R sessions, then

Rscript -e "remove.packages('lightbm')"

Then re-installing and trying again.

[fabianmax]

Thanks for looking into this. I did a reinstall using clang instead of gcc this time. Seems to solve the problem 👍