# Licensed to the Apache Software Foundation (ASF) under one # or more contributor license agreements. See the NOTICE file # distributed with this work for additional information # regarding copyright ownership. The ASF licenses this file # to you under the Apache License, Version 2.0 (the # "License"); you may not use this file except in compliance # with the License. You may obtain a copy of the License at # # http://www.apache.org/licenses/LICENSE-2.0 # # Unless required by applicable law or agreed to in writing, # software distributed under the License is distributed on an # "AS IS" BASIS, WITHOUT WARRANTIES OR CONDITIONS OF ANY # KIND, either express or implied. See the License for the # specific language governing permissions and limitations # under the License. expect_chunked_roundtrip <- function(x, type) { a <- ChunkedArray$create(!!!x) flat_x <- unlist(x, recursive = FALSE) attributes(flat_x) <- attributes(x[[1]]) expect_type_equal(a$type, type) expect_identical(a$num_chunks, length(x)) expect_identical(length(a), length(flat_x)) if (!inherits(type, "ListType")) { # TODO: revisit how missingness works with ListArrays # R list objects don't handle missingness the same way as other vectors. # Is there some vctrs thing we should do on the roundtrip back to R? expect_identical(as.vector(is.na(a)), is.na(flat_x)) } expect_as_vector(a, flat_x) expect_as_vector(a$chunk(0), x[[1]]) if (length(flat_x)) { a_sliced <- a$Slice(1) x_sliced <- flat_x[-1] expect_type_equal(a_sliced$type, type) expect_identical(length(a_sliced), length(x_sliced)) if (!inherits(type, "ListType")) { expect_identical(as.vector(is.na(a_sliced)), is.na(x_sliced)) } expect_as_vector(a_sliced, x_sliced) } invisible(a) } test_that("ChunkedArray", { x <- expect_chunked_roundtrip(list(1:10, 1:10, 1:5), int32()) y <- x$Slice(8) expect_equal(y$type, int32()) expect_equal(y$num_chunks, 3L) expect_equal(length(y), 17L) expect_as_vector(y, c(9:10, 1:10, 1:5)) z <- x$Slice(8, 5) expect_equal(z$type, int32()) expect_equal(z$num_chunks, 2L) expect_equal(z$length(), 5L) expect_equal(z$as_vector(), c(9:10, 1:3)) expect_chunked_roundtrip(list(c(1, 2, 3), c(4, 5, 6)), float64()) # input validation expect_error(x$chunk(14), "subscript out of bounds") expect_error(x$chunk("one")) expect_error(x$chunk(NA_integer_), "'i' cannot be NA") expect_error(x$chunk(-1), "subscript out of bounds") expect_error(x$Slice("ten")) expect_error(x$Slice(NA_integer_), "Slice 'offset' cannot be NA") expect_error(x$Slice(NA), "Slice 'offset' cannot be NA") expect_error(x$Slice(10, "ten")) expect_error(x$Slice(10, NA_integer_), "Slice 'length' cannot be NA") expect_error(x$Slice(NA_integer_, NA_integer_), "Slice 'offset' cannot be NA") expect_error(x$Slice(c(10, 10))) expect_error(x$Slice(10, c(10, 10))) expect_error(x$Slice(1000), "Slice 'offset' greater than array length") expect_error(x$Slice(-1), "Slice 'offset' cannot be negative") expect_error(z$Slice(10, 10), "Slice 'offset' greater than array length") expect_error(x$Slice(10, -1), "Slice 'length' cannot be negative") expect_error(x$Slice(-1, 10), "Slice 'offset' cannot be negative") expect_warning(x$Slice(10, 15), NA) expect_warning( overslice <- x$Slice(10, 16), "Slice 'length' greater than available length" ) expect_equal(length(overslice), 15) expect_warning(z$Slice(2, 10), "Slice 'length' greater than available length") }) test_that("print ChunkedArray", { verify_output(test_path("test-chunked-array.txt"), { chunked_array(c(1, 2, 3), c(4, 5, 6)) chunked_array(1:30, c(4, 5, 6)) chunked_array(1:30) chunked_array(factor(c("a", "b")), factor(c("c", "d"))) }) }) test_that("ChunkedArray handles !!! splicing", { data <- list(1, 2, 3) x <- chunked_array(!!!data) expect_equal(x$type, float64()) expect_equal(x$num_chunks, 3L) }) test_that("ChunkedArray handles Inf", { data <- list(c(Inf, 2:10), c(1:3, Inf, 5L), 1:10) x <- chunked_array(!!!data) expect_equal(x$type, float64()) expect_equal(x$num_chunks, 3L) expect_equal(length(x), 25L) expect_as_vector(x, c(c(Inf, 2:10), c(1:3, Inf, 5), 1:10)) chunks <- x$chunks expect_as_vector(is.infinite(chunks[[2]]), is.infinite(data[[2]])) expect_equal( as.vector(is.infinite(x)), c(is.infinite(data[[1]]), is.infinite(data[[2]]), is.infinite(data[[3]])) ) }) test_that("ChunkedArray handles NA", { data <- list(1:10, c(NA, 2:10), c(1:3, NA, 5L)) x <- chunked_array(!!!data) expect_equal(x$type, int32()) expect_equal(x$num_chunks, 3L) expect_equal(length(x), 25L) expect_as_vector(x, c(1:10, c(NA, 2:10), c(1:3, NA, 5))) chunks <- x$chunks expect_as_vector(is.na(chunks[[2]]), is.na(data[[2]])) expect_as_vector(is.na(x), c(is.na(data[[1]]), is.na(data[[2]]), is.na(data[[3]]))) }) test_that("ChunkedArray handles NaN", { data <- list(as.numeric(1:10), c(NaN, 2:10), c(1:3, NaN, 5L)) x <- chunked_array(!!!data) expect_equal(x$type, float64()) expect_equal(x$num_chunks, 3L) expect_equal(length(x), 25L) expect_as_vector(x, c(1:10, c(NaN, 2:10), c(1:3, NaN, 5))) chunks <- x$chunks expect_as_vector(is.nan(chunks[[2]]), is.nan(data[[2]])) expect_as_vector(is.nan(x), c(is.nan(data[[1]]), is.nan(data[[2]]), is.nan(data[[3]]))) }) test_that("ChunkedArray supports logical vectors (ARROW-3341)", { # with NA data <- purrr::rerun(3, sample(c(TRUE, FALSE, NA), 100, replace = TRUE)) expect_chunked_roundtrip(data, bool()) # without NA data <- purrr::rerun(3, sample(c(TRUE, FALSE), 100, replace = TRUE)) expect_chunked_roundtrip(data, bool()) }) test_that("ChunkedArray supports character vectors (ARROW-3339)", { data <- list( c("itsy", NA, "spider"), c("Climbed", "up", "the", "water", "spout"), c("Down", "came", "the", "rain"), "And washed the spider out. " ) expect_chunked_roundtrip(data, utf8()) }) test_that("ChunkedArray supports factors (ARROW-3716)", { f <- factor(c("itsy", "bitsy", "spider", "spider")) expect_chunked_roundtrip(list(f, f, f), dictionary(int8())) }) test_that("ChunkedArray supports dates (ARROW-3716)", { d <- Sys.Date() + 1:10 expect_chunked_roundtrip(list(d, d), date32()) }) test_that("ChunkedArray supports POSIXct (ARROW-3716)", { times <- lubridate::ymd_hms("2018-10-07 19:04:05") + 1:10 expect_chunked_roundtrip(list(times, times), timestamp("us", "UTC")) }) test_that("ChunkedArray supports integer64 (ARROW-3716)", { x <- bit64::as.integer64(1:10) + MAX_INT expect_chunked_roundtrip(list(x, x), int64()) # Also with a first chunk that would downcast zero <- Array$create(0L)$cast(int64()) expect_type_equal(zero, int64()) ca <- ChunkedArray$create(zero, x) expect_type_equal(ca, int64()) expect_s3_class(as.vector(ca), "integer64") expect_identical(as.vector(ca), c(bit64::as.integer64(0L), x)) }) test_that("ChunkedArray supports difftime", { time <- hms::hms(56, 34, 12) expect_chunked_roundtrip(list(time, time), time32("s")) }) test_that("ChunkedArray supports empty arrays (ARROW-13761)", { types <- c( int8(), int16(), int32(), int64(), uint8(), uint16(), uint32(), uint64(), float32(), float64(), timestamp("ns"), binary(), large_binary(), fixed_size_binary(32), date32(), date64(), decimal(4, 2), dictionary(), struct(x = int32()) ) empty_filter <- ChunkedArray$create(type = bool()) for (type in types) { one_empty_chunk <- ChunkedArray$create(type = type) expect_type_equal(one_empty_chunk$type, type) if (type != struct(x = int32())) { expect_identical(length(one_empty_chunk), length(as.vector(one_empty_chunk))) } else { # struct -> tbl and length(tbl) is num_columns instead of num_rows expect_identical(length(as.vector(one_empty_chunk)), 1L) } zero_empty_chunks <- one_empty_chunk$Filter(empty_filter) expect_equal(zero_empty_chunks$num_chunks, 0) expect_type_equal(zero_empty_chunks$type, type) if (type != struct(x = int32())) { expect_identical(length(zero_empty_chunks), length(as.vector(zero_empty_chunks))) } else { expect_identical(length(as.vector(zero_empty_chunks)), 1L) } } }) test_that("integer types casts for ChunkedArray (ARROW-3741)", { int_types <- c(int8(), int16(), int32(), int64()) uint_types <- c(uint8(), uint16(), uint32(), uint64()) float_types <- c(float32(), float64()) # float16() not really supported in C++ yet all_types <- c( int_types, uint_types, float_types ) a <- chunked_array(1:10, 1:10) for (type in c(int_types, uint_types)) { casted <- a$cast(type) expect_r6_class(casted, "ChunkedArray") expect_type_equal(casted$type, type) } # Also test casting to double(), not actually a type, a base R function but should be alias for float64 dbl <- a$cast(double()) expect_r6_class(dbl, "ChunkedArray") expect_type_equal(dbl$type, float64()) }) test_that("chunked_array() supports the type= argument. conversion from INTSXP and int64 to all int types", { num_int32 <- 12L num_int64 <- bit64::as.integer64(10) for (type in all_types) { expect_type_equal(chunked_array(num_int32, type = type)$type, type) expect_type_equal(chunked_array(num_int64, type = type)$type, type) } # also test creating with double() "type" expect_type_equal(chunked_array(num_int32, type = double())$type, float64()) }) test_that("ChunkedArray$create() aborts on overflow", { expect_error(chunked_array(128L, type = int8())$type) expect_error(chunked_array(-129L, type = int8())$type) expect_error(chunked_array(256L, type = uint8())$type) expect_error(chunked_array(-1L, type = uint8())$type) expect_error(chunked_array(32768L, type = int16())$type) expect_error(chunked_array(-32769L, type = int16())$type) expect_error(chunked_array(65536L, type = uint16())$type) expect_error(chunked_array(-1L, type = uint16())$type) expect_error(chunked_array(65536L, type = uint16())$type) expect_error(chunked_array(-1L, type = uint16())$type) expect_error(chunked_array(bit64::as.integer64(2^31), type = int32())) expect_error(chunked_array(bit64::as.integer64(2^32), type = uint32())) }) test_that("chunked_array() convert doubles to integers", { for (type in c(int_types, uint_types)) { a <- chunked_array(10, type = type) expect_type_equal(a$type, type) if (type != uint64()) { # exception for unsigned integer 64 that # wa cannot handle yet expect_true(as.vector(a) == 10) } } }) test_that("chunked_array() uses the first ... to infer type", { a <- chunked_array(10, 10L) expect_type_equal(a$type, float64()) }) test_that("chunked_array() handles downcasting", { a <- chunked_array(10L, 10) expect_type_equal(a$type, int32()) expect_as_vector(a, c(10L, 10L)) }) test_that("chunked_array() makes chunks of the same type", { a <- chunked_array(10L, bit64::as.integer64(13), type = int64()) for (chunk in a$chunks) { expect_type_equal(chunk$type, int64()) } }) test_that("chunked_array() handles 0 chunks if given a type", { for (type in all_types) { a <- chunked_array(type = type) expect_type_equal(a$type, as_type(type)) expect_equal(length(a), 0L) } }) test_that("chunked_array() can ingest arrays (ARROW-3815)", { expect_equal( as.vector(chunked_array(1:5, Array$create(6:10))), 1:10 ) }) test_that("chunked_array() handles data frame -> struct arrays (ARROW-3811)", { df <- tibble::tibble(x = 1:10, y = x / 2, z = letters[1:10]) a <- chunked_array(df, df) expect_type_equal(a$type, struct(x = int32(), y = float64(), z = utf8())) expect_equal(a$as_vector(), rbind(df, df), ignore_attr = TRUE) }) test_that("ChunkedArray$View() (ARROW-6542)", { a <- ChunkedArray$create(1:3, 1:4) b <- a$View(float32()) expect_equal(b$type, float32()) expect_equal(length(b), 7L) expect_true(all( sapply(b$chunks, function(.x) .x$type == float32()) )) # Input validation expect_error(a$View("not a type"), "type must be a DataType, not character") }) test_that("ChunkedArray$Validate()", { a <- ChunkedArray$create(1:10) expect_error(a$Validate(), NA) }) test_that("[ ChunkedArray", { one_chunk <- chunked_array(2:11) x <- chunked_array(1:10, 31:40, 51:55) # Slice expect_as_vector(x[8:12], c(8:10, 31:32)) # Take from same chunk expect_as_vector(x[c(11, 15, 12)], c(31, 35, 32)) # Take from multiple chunks (calls Concatenate) expect_as_vector(x[c(2, 11, 15, 12, 3)], c(2, 31, 35, 32, 3)) # Take with Array (note these are 0-based) take1 <- Array$create(c(10L, 14L, 11L)) expect_as_vector(x[take1], c(31, 35, 32)) # Take with ChunkedArray take2 <- ChunkedArray$create(c(10L, 14L), 11L) expect_as_vector(x[take2], c(31, 35, 32)) # Filter (with recycling) expect_as_vector( one_chunk[c(FALSE, TRUE, FALSE, FALSE, TRUE)], c(3, 6, 8, 11) ) # Filter where both are 1-chunk expect_as_vector( one_chunk[ChunkedArray$create(rep(c(FALSE, TRUE, FALSE, FALSE, TRUE), 2))], c(3, 6, 8, 11) ) # Filter multi-chunk with logical (-> Array) expect_as_vector( x[c(FALSE, TRUE, FALSE, FALSE, TRUE)], c(2, 5, 7, 10, 32, 35, 37, 40, 52, 55) ) # Filter with a chunked array with different sized chunks p1 <- c(FALSE, TRUE, FALSE, FALSE, TRUE) p2 <- c(TRUE, FALSE, TRUE, TRUE, FALSE, FALSE, FALSE, FALSE, FALSE, TRUE) filt <- ChunkedArray$create(p1, p2, p2) expect_as_vector( x[filt], c(2, 5, 6, 8, 9, 35, 36, 38, 39, 55) ) }) test_that("ChunkedArray head/tail", { vec <- 11:20 a <- ChunkedArray$create(11:15, 16:20) expect_as_vector(head(a), head(vec)) expect_as_vector(head(a, 4), head(vec, 4)) expect_as_vector(head(a, 40), head(vec, 40)) expect_as_vector(head(a, -4), head(vec, -4)) expect_as_vector(head(a, -40), head(vec, -40)) expect_as_vector(tail(a), tail(vec)) expect_as_vector(tail(a, 4), tail(vec, 4)) expect_as_vector(tail(a, 40), tail(vec, 40)) expect_as_vector(tail(a, -40), tail(vec, -40)) }) test_that("ChunkedArray$Equals", { vec <- 11:20 a <- ChunkedArray$create(vec[1:5], vec[6:10]) b <- ChunkedArray$create(vec[1:5], vec[6:10]) expect_equal(a, b) expect_true(a$Equals(b)) expect_false(a$Equals(vec)) }) test_that("Converting a chunked array unifies factors (ARROW-8374)", { f1 <- factor(c("a"), levels = c("a", "b")) f2 <- factor(c("c"), levels = c("c", "d")) f3 <- factor(NA, levels = "a") f4 <- factor() res <- factor(c("a", "c", NA), levels = c("a", "b", "c", "d")) ca <- ChunkedArray$create(f1, f2, f3, f4) expect_identical(ca$as_vector(), res) }) test_that("Handling string data with embedded nuls", { raws <- structure(list( as.raw(c(0x70, 0x65, 0x72, 0x73, 0x6f, 0x6e)), as.raw(c(0x77, 0x6f, 0x6d, 0x61, 0x6e)), as.raw(c(0x6d, 0x61, 0x00, 0x6e)), # <-- there's your nul, 0x00 as.raw(c(0x66, 0x00, 0x00, 0x61, 0x00, 0x6e)), # multiple nuls as.raw(c(0x63, 0x61, 0x6d, 0x65, 0x72, 0x61)), as.raw(c(0x74, 0x76)) ), class = c("arrow_binary", "vctrs_vctr", "list") ) chunked_array_with_nul <- ChunkedArray$create(raws)$cast(utf8()) # The behavior of the warnings/errors is slightly different with and without # altrep. Without it (i.e. 3.5.0 and below, the error would trigger immediately # on `as.vector()` where as with it, the error only happens on materialization) skip_if_r_version("3.5.0") v <- expect_error(as.vector(chunked_array_with_nul), NA) expect_error( v[], paste0( "embedded nul in string: 'ma\\0n'; to strip nuls when converting from Arrow to R, ", "set options(arrow.skip_nul = TRUE)" ), fixed = TRUE ) withr::with_options(list(arrow.skip_nul = TRUE), { v <- expect_warning(as.vector(chunked_array_with_nul), NA) expect_warning( expect_identical(v[3], "man"), "Stripping '\\0' (nul) from character vector", fixed = TRUE ) }) })