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[R] Fix integer inputs with NA. (#9522) (#9534)

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Jiaming Yuan 2023-08-29 19:52:13 +08:00 committed by GitHub
parent add57f8880
commit e50ccc4d3c
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GPG Key ID: 4AEE18F83AFDEB23
2 changed files with 55 additions and 5 deletions
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16
R-package/src/xgboost_R.cc
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@ -120,11 +120,25 @@ XGB_DLL SEXP XGDMatrixCreateFromMat_R(SEXP mat, SEXP missing, SEXP n_threads) {
ctx.nthread = asInteger(n_threads);
std::int32_t threads = ctx.Threads();
if (is_int) {
xgboost::common::ParallelFor(nrow, threads, [&](xgboost::omp_ulong i) {
for (size_t j = 0; j < ncol; ++j) {
data[i * ncol + j] = is_int ? static_cast<float>(iin[i + nrow * j]) : din[i + nrow * j];
auto v = iin[i + nrow * j];
if (v == NA_INTEGER) {
data[i * ncol + j] = std::numeric_limits<float>::quiet_NaN();
} else {
data[i * ncol + j] = static_cast<float>(v);
}
}
});
} else {
xgboost::common::ParallelFor(nrow, threads, [&](xgboost::omp_ulong i) {
for (size_t j = 0; j < ncol; ++j) {
data[i * ncol + j] = din[i + nrow * j];
}
});
}
DMatrixHandle handle;
CHECK_CALL(XGDMatrixCreateFromMat_omp(BeginPtr(data), nrow, ncol,
asReal(missing), &handle, threads));

36
R-package/tests/testthat/test_dmatrix.R
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@ -56,6 +56,42 @@ test_that("xgb.DMatrix: basic construction", {
expect_equal(raw_fd, raw_dgc)
})
test_that("xgb.DMatrix: NA", {
n_samples <- 3
x <- cbind(
x1 = sample(x = 4, size = n_samples, replace = TRUE),
x2 = sample(x = 4, size = n_samples, replace = TRUE)
)
x[1, "x1"] <- NA
m <- xgb.DMatrix(x)
xgb.DMatrix.save(m, "int.dmatrix")
x <- matrix(as.numeric(x), nrow = n_samples, ncol = 2)
colnames(x) <- c("x1", "x2")
m <- xgb.DMatrix(x)
xgb.DMatrix.save(m, "float.dmatrix")
iconn <- file("int.dmatrix", "rb")
fconn <- file("float.dmatrix", "rb")
expect_equal(file.size("int.dmatrix"), file.size("float.dmatrix"))
bytes <- file.size("int.dmatrix")
idmatrix <- readBin(iconn, "raw", n = bytes)
fdmatrix <- readBin(fconn, "raw", n = bytes)
expect_equal(length(idmatrix), length(fdmatrix))
expect_equal(idmatrix, fdmatrix)
close(iconn)
close(fconn)
file.remove("int.dmatrix")
file.remove("float.dmatrix")
})
test_that("xgb.DMatrix: saving, loading", {
# save to a local file
dtest1 <- xgb.DMatrix(test_data, label = test_label)