1
2
3
4
5
6
7
8
9
10
11
12
13
14
15
16
17
18
19
20
21
22
23
24
25
26
27
28
29
30
31
32
33
34
35
36
37
38
39
40
41
42
43
44
45
46
47
48
49
50
51
52
53
54
55
56
57
58
59
60
61
62
63
64
65
66
67
68
69
70
71
72
73
74
75
76
77
78
79
80
81
82
83
84
85
86
87
88
89
90
91
92
93
94
95
96
97
98
99
100
101
102
103
104
105
106
107
108
109
110
111
112
113
114
115
116
117
118
119
120
121
122
123
124
125
126
127
128
129
130
131
132
133
134
135
136
137
138
139
140
141
142
143
144
145
146
147
148
149
150
151
152
153
154
155
156
157
158
159
160
161
162
163
164
165
166
167
168
169
170
171
172
173
174
175
176
177
178
179
180
181
182
183
184
185
186
187
188
189
190
191
192
193
194
195
196
197
198
199
200
201
202
203
204
205
206
207
208
209
210
|
#
# 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.
#
context("test functions in sparkR.R")
test_that("Check masked functions", {
# Check that we are not masking any new function from base, stats, testthat unexpectedly
# NOTE: We should avoid adding entries to *namesOfMaskedCompletely* as masked functions make it
# hard for users to use base R functions. Please check when in doubt.
namesOfMaskedCompletely <- c("cov", "filter", "sample")
namesOfMasked <- c("describe", "cov", "filter", "lag", "na.omit", "predict", "sd", "var",
"colnames", "colnames<-", "intersect", "rank", "rbind", "sample", "subset",
"summary", "transform", "drop", "window", "as.data.frame", "union")
if (as.numeric(R.version$major) >= 3 && as.numeric(R.version$minor) >= 3) {
namesOfMasked <- c("endsWith", "startsWith", namesOfMasked)
}
masked <- conflicts(detail = TRUE)$`package:SparkR`
expect_true("describe" %in% masked) # only when with testthat..
func <- lapply(masked, function(x) { capture.output(showMethods(x))[[1]] })
funcSparkROrEmpty <- grepl("\\(package SparkR\\)$|^$", func)
maskedBySparkR <- masked[funcSparkROrEmpty]
expect_equal(length(maskedBySparkR), length(namesOfMasked))
# make the 2 lists the same length so expect_equal will print their content
l <- max(length(maskedBySparkR), length(namesOfMasked))
length(maskedBySparkR) <- l
length(namesOfMasked) <- l
expect_equal(sort(maskedBySparkR, na.last = TRUE), sort(namesOfMasked, na.last = TRUE))
# above are those reported as masked when `library(SparkR)`
# note that many of these methods are still callable without base:: or stats:: prefix
# there should be a test for each of these, except followings, which are currently "broken"
funcHasAny <- unlist(lapply(masked, function(x) {
any(grepl("=\"ANY\"", capture.output(showMethods(x)[-1])))
}))
maskedCompletely <- masked[!funcHasAny]
expect_equal(length(maskedCompletely), length(namesOfMaskedCompletely))
l <- max(length(maskedCompletely), length(namesOfMaskedCompletely))
length(maskedCompletely) <- l
length(namesOfMaskedCompletely) <- l
expect_equal(sort(maskedCompletely, na.last = TRUE),
sort(namesOfMaskedCompletely, na.last = TRUE))
})
test_that("repeatedly starting and stopping SparkR", {
for (i in 1:4) {
sc <- suppressWarnings(sparkR.init())
rdd <- parallelize(sc, 1:20, 2L)
expect_equal(countRDD(rdd), 20)
suppressWarnings(sparkR.stop())
}
})
test_that("repeatedly starting and stopping SparkSession", {
for (i in 1:4) {
sparkR.session(enableHiveSupport = FALSE)
df <- createDataFrame(data.frame(dummy = 1:i))
expect_equal(count(df), i)
sparkR.session.stop()
}
})
test_that("rdd GC across sparkR.stop", {
sc <- sparkR.sparkContext() # sc should get id 0
rdd1 <- parallelize(sc, 1:20, 2L) # rdd1 should get id 1
rdd2 <- parallelize(sc, 1:10, 2L) # rdd2 should get id 2
sparkR.session.stop()
sc <- sparkR.sparkContext() # sc should get id 0 again
# GC rdd1 before creating rdd3 and rdd2 after
rm(rdd1)
gc()
rdd3 <- parallelize(sc, 1:20, 2L) # rdd3 should get id 1 now
rdd4 <- parallelize(sc, 1:10, 2L) # rdd4 should get id 2 now
rm(rdd2)
gc()
countRDD(rdd3)
countRDD(rdd4)
sparkR.session.stop()
})
test_that("job group functions can be called", {
sc <- sparkR.sparkContext()
setJobGroup("groupId", "job description", TRUE)
cancelJobGroup("groupId")
clearJobGroup()
suppressWarnings(setJobGroup(sc, "groupId", "job description", TRUE))
suppressWarnings(cancelJobGroup(sc, "groupId"))
suppressWarnings(clearJobGroup(sc))
sparkR.session.stop()
})
test_that("utility function can be called", {
sparkR.sparkContext()
setLogLevel("ERROR")
sparkR.session.stop()
})
test_that("getClientModeSparkSubmitOpts() returns spark-submit args from whitelist", {
e <- new.env()
e[["spark.driver.memory"]] <- "512m"
ops <- getClientModeSparkSubmitOpts("sparkrmain", e)
expect_equal("--driver-memory \"512m\" sparkrmain", ops)
e[["spark.driver.memory"]] <- "5g"
e[["spark.driver.extraClassPath"]] <- "/opt/class_path" # nolint
e[["spark.driver.extraJavaOptions"]] <- "-XX:+UseCompressedOops -XX:+UseCompressedStrings"
e[["spark.driver.extraLibraryPath"]] <- "/usr/local/hadoop/lib" # nolint
e[["random"]] <- "skipthis"
ops2 <- getClientModeSparkSubmitOpts("sparkr-shell", e)
# nolint start
expect_equal(ops2, paste0("--driver-class-path \"/opt/class_path\" --driver-java-options \"",
"-XX:+UseCompressedOops -XX:+UseCompressedStrings\" --driver-library-path \"",
"/usr/local/hadoop/lib\" --driver-memory \"5g\" sparkr-shell"))
# nolint end
e[["spark.driver.extraClassPath"]] <- "/" # too short
ops3 <- getClientModeSparkSubmitOpts("--driver-memory 4g sparkr-shell2", e)
# nolint start
expect_equal(ops3, paste0("--driver-java-options \"-XX:+UseCompressedOops ",
"-XX:+UseCompressedStrings\" --driver-library-path \"/usr/local/hadoop/lib\"",
" --driver-memory 4g sparkr-shell2"))
# nolint end
})
test_that("sparkJars sparkPackages as comma-separated strings", {
expect_warning(processSparkJars(" a, b "))
jars <- suppressWarnings(processSparkJars(" a, b "))
expect_equal(lapply(jars, basename), list("a", "b"))
jars <- suppressWarnings(processSparkJars(" abc ,, def "))
expect_equal(lapply(jars, basename), list("abc", "def"))
jars <- suppressWarnings(processSparkJars(c(" abc ,, def ", "", "xyz", " ", "a,b")))
expect_equal(lapply(jars, basename), list("abc", "def", "xyz", "a", "b"))
p <- processSparkPackages(c("ghi", "lmn"))
expect_equal(p, c("ghi", "lmn"))
# check normalizePath
f <- dir()[[1]]
expect_warning(processSparkJars(f), NA)
expect_match(processSparkJars(f), f)
})
test_that("spark.lapply should perform simple transforms", {
sparkR.sparkContext()
doubled <- spark.lapply(1:10, function(x) { 2 * x })
expect_equal(doubled, as.list(2 * 1:10))
sparkR.session.stop()
})
test_that("add and get file to be downloaded with Spark job on every node", {
sparkR.sparkContext()
# Test add file.
path <- tempfile(pattern = "hello", fileext = ".txt")
filename <- basename(path)
words <- "Hello World!"
writeLines(words, path)
spark.addFile(path)
download_path <- spark.getSparkFiles(filename)
expect_equal(readLines(download_path), words)
# Test spark.getSparkFiles works well on executors.
seq <- seq(from = 1, to = 10, length.out = 5)
f <- function(seq) { spark.getSparkFiles(filename) }
results <- spark.lapply(seq, f)
for (i in 1:5) { expect_equal(basename(results[[i]]), filename) }
unlink(path)
# Test add directory recursively.
path <- paste0(tempdir(), "/", "recursive_dir")
dir.create(path)
dir_name <- basename(path)
path1 <- paste0(path, "/", "hello.txt")
file.create(path1)
sub_path <- paste0(path, "/", "sub_hello")
dir.create(sub_path)
path2 <- paste0(sub_path, "/", "sub_hello.txt")
file.create(path2)
words <- "Hello World!"
sub_words <- "Sub Hello World!"
writeLines(words, path1)
writeLines(sub_words, path2)
spark.addFile(path, recursive = TRUE)
download_path1 <- spark.getSparkFiles(paste0(dir_name, "/", "hello.txt"))
expect_equal(readLines(download_path1), words)
download_path2 <- spark.getSparkFiles(paste0(dir_name, "/", "sub_hello/sub_hello.txt"))
expect_equal(readLines(download_path2), sub_words)
unlink(path, recursive = TRUE)
sparkR.session.stop()
})
|
