segfault in R3.4.3 on Mac #23
Description
@JackStat FYI Running caret with metric "ROC" consistently produces a segfault on macOS (sierra) with R3.4.3. The segfault message is shown below. Example code also shown below. I have been able to reproduce on multiple different datasets and estimation algorithms. The segfault message refers to ModelMetrics_auc. The code example works fine if I provide my own function to calculate auc.
I hope you'll be able to take a look at this. Please let me know if you need more information. Thanks
cc-ing @topepo
*** caught segfault ***
address 0x18, cause 'memory not mapped'
Traceback:
1: .Call("ModelMetrics_auc_", PACKAGE = "ModelMetrics", actual, predicted, ranks)
2: auc_(actual, predicted, ranks)
3: ModelMetrics::auc(ifelse(data$obs == lev[2], 0, 1), data[, lvls[1]])
4: ctrl$summaryFunction(testOutput, lev, method)
5: evalSummaryFunction(y, wts = weights, ctrl = trControl, lev = classLevels, metric = metric, method = method)
6: train.default(x, y, weights = w, ...)
7: train(x, y, weights = w, ...)
8: train.formula(vs ~ ., data = dat, method = "ranger", trControl = ctrl, tuneGrid = grid, metric = "ROC", verbose = FALSE)
9: train(vs ~ ., data = dat, method = "ranger", trControl = ctrl, tuneGrid = grid, metric = "ROC", verbose = FALSE)
Possible actions:
1: abort (with core dump, if enabled)
2: normal R exit
3: exit R without saving workspace
4: exit R saving workspace
Selection:
Selection:
Selection:
## loading libraries
library(ranger)
library(caret)
dat <- mtcars
dat$vs <- factor(ifelse(dat$vs == 1, "yes", "no"))
sapply(dat, class)
ranger(
vs ~ .,
data = dat,
probability = TRUE,
num.trees = 50,
mtry = 3
)
set.seed(1234)
grid <- expand.grid(mtry = 3:4, splitrule = "gini", min.node.size = 1)
ctrl <- trainControl(
method = "cv",
number = 5,
classProbs = TRUE,
summaryFunction = twoClassSummary,
verboseIter = TRUE
)
result <- train(
vs ~ .,
data = dat,
method = "ranger",
trControl = ctrl,
tuneGrid = grid,
metric = "ROC",
verbose = FALSE
)
Session Info:
> sessionInfo()
R version 3.4.3 (2017-11-30)
Platform: x86_64-apple-darwin15.6.0 (64-bit)
Running under: macOS Sierra 10.12.6
Matrix products: default
BLAS: /System/Library/Frameworks/Accelerate.framework/Versions/A/Frameworks/vecLib.framework/Versions/A/libBLAS.dylib
LAPACK: /Library/Frameworks/R.framework/Versions/3.4/Resources/lib/libRlapack.dylib
locale:
[1] en_US.UTF-8/en_US.UTF-8/en_US.UTF-8/C/en_US.UTF-8/en_US.UTF-8
attached base packages:
[1] stats graphics grDevices utils datasets methods base
other attached packages:
[1] caret_6.0-78 ggplot2_2.2.1 lattice_0.20-35 ranger_0.9.0
loaded via a namespace (and not attached):
[1] tidyselect_0.2.3 purrr_0.2.4 reshape2_1.4.3 kernlab_0.9-25 splines_3.4.3 colorspace_1.3-2
[7] stats4_3.4.3 yaml_2.1.16 survival_2.41-3 prodlim_1.6.1 rlang_0.2.0.9000 ModelMetrics_1.1.0
[13] pillar_1.1.0 withr_2.1.1 foreign_0.8-69 glue_1.2.0 bindrcpp_0.2 foreach_1.4.3
[19] bindr_0.1.0.9000 plyr_1.8.4 dimRed_0.1.0 lava_1.6 robustbase_0.92-8 stringr_1.3.0
[25] timeDate_3042.101 munsell_0.4.3 gtable_0.2.0 recipes_0.1.2 codetools_0.2-15 psych_1.7.8
[31] parallel_3.4.3 class_7.3-14 DEoptimR_1.0-8 broom_0.4.3 Rcpp_0.12.15 scales_0.5.0
[37] ipred_0.9-6 CVST_0.2-1 mnormt_1.5-5 stringi_1.1.6 dplyr_0.7.4 RcppRoll_0.2.2
[43] ddalpha_1.3.1.1 grid_3.4.3 tools_3.4.3 magrittr_1.5 lazyeval_0.2.1 tibble_1.4.2
[49] tidyr_0.8.0 DRR_0.0.3 pkgconfig_2.0.1 MASS_7.3-48 Matrix_1.2-12 lubridate_1.7.2
[55] gower_0.1.2 assertthat_0.2.0 iterators_1.0.8 R6_2.2.2 rpart_4.1-12 sfsmisc_1.1-0
[61] nnet_7.3-12 nlme_3.1-131 compiler_3.4.3