Graphics come out blank.
I need to plot several graphs from a GBM analysis, so I am using a loop along with the paste function.
But are all the graphics coming out blank? What can it be? When executing code out of the loop everything works. Thank you
list <- list("A","B", "C")
for (i in list) {
df <- fread(paste("data_", i, ".csv", sep = ""), header = TRUE)
gbm.fit <- gbm( formula = y ~ ., distribution = "gaussian", data = train,n.trees = 1000, interaction.depth = 5, shrinkage = 0.1, cv.folds = 5, n.cores = NULL, verbose = FALSE )
pathname <- paste("gbm", i, ".tiff", sep = "")
tiff( file = pathname, width = 1200, height = 1000, res = 105 )
vip( gbm.fit, num_features = 15, bar = TRUE, width = 0.75, horizontal = TRUE, color = hcl.colors( 15, palette = "Greens2", alpha = NULL, rev = FALSE, fixup = TRUE ), fill = hcl.colors( 15, palette ="Greens", alpha = NULL, rev = TRUE, fixup = TRUE ) )
dev.off()
}
I would like the graphics to come out with the correct content
The vip
function uses ggplot2
-based graphics. Therefore, either print()
the plot or use ggsave()
to save the plot to a file:
1. The print()
method:
myPlot <- vip( gbm.fit, num_features = 15, bar = TRUE, width = 0.75, horizontal = TRUE,
color = hcl.colors( 15, palette = "Greens2", alpha = NULL, rev = FALSE,
fixup = TRUE ), fill = hcl.colors( 15, palette ="Greens", alpha = NULL,
rev = TRUE, fixup = TRUE ) )
tiff( file = pathname, width = 1200, height = 1000, res = 105 )
print(myPlot)
dev.off()
2. The ggsave()
method:
myRes <- 105 # ggsave uses inches, not pixels
ggsave(pathname, myPlot, device = "tiff", width = 1200 / myRes,
height = 1000 / myRes, dpi = myRes)
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