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
|
message("Testing bplapply")
quiet <- suppressWarnings
test_bplapply_Params <- function()
{
cl <- parallel::makeCluster(2)
doParallel::registerDoParallel(cl)
params <- list(
serial=SerialParam(),
snow=SnowParam(2),
dopar=DoparParam()
)
if (.Platform$OS.type != "windows")
params$mc <- MulticoreParam(2)
x <- 1:10
expected <- lapply(x, sqrt)
for (param in names(params)) {
current <- quiet(bplapply(x, sqrt, BPPARAM=params[[param]]))
checkIdentical(expected, current)
}
# test empty input
for (param in names(params)) {
current <- quiet(bplapply(list(), identity, BPPARAM=params[[param]]))
checkIdentical(list(), current)
}
## clean up
foreach::registerDoSEQ()
parallel::stopCluster(cl)
closeAllConnections()
TRUE
}
test_bplapply_symbols <- function()
{
cl <- parallel::makeCluster(2)
doParallel::registerDoParallel(cl)
params <- list(
serial=SerialParam(),
snow=SnowParam(2),
dopar=DoparParam()
)
if (.Platform$OS.type != "windows")
params$mc <- MulticoreParam(2)
x <- list(as.symbol(".XYZ"))
expected <- lapply(x, as.character)
for (param in names(params)) {
current <- quiet(bplapply(x, as.character, BPPARAM=params[[param]]))
checkIdentical(expected, current)
}
## clean up
foreach::registerDoSEQ()
parallel::stopCluster(cl)
closeAllConnections()
TRUE
}
test_bplapply_named_list <- function()
{
X <- list()
Y <- character()
checkIdentical(X, bplapply(X, identity))
checkIdentical(X, bplapply(Y, identity))
names(X) <- names(Y) <- character()
checkIdentical(X, bplapply(X, identity))
checkIdentical(X, bplapply(Y, identity))
X <- list(a = 1:2)
checkIdentical(X, bplapply(X, identity))
X <- list(c(a = 1))
checkIdentical(X, bplapply(X, identity))
X <- list(A = c(a = 1:2, b = 1:3), B = c(b = 1:2))
checkIdentical(X, bplapply(X, identity))
X <- list(a = 1:2, b = 3:4)
checkIdentical(X, bplapply(X, identity))
X <- list(c(a = 1))
checkIdentical(X, bplapply(X, identity))
X <- list(A = c(a = 1, b=2), B = c(c = 1, d = 2))
checkIdentical(X, bplapply(X, identity))
}
test_bplapply_named_list_with_REDO <- function(){
X = setNames(1:3, letters[1:3])
param = SerialParam(stop.on.error = FALSE)
FUN1 = function(i) if (i == 2) stop() else i
result <- bptry(bplapply(X, FUN1, BPPARAM = param))
checkIdentical(names(result), names(X))
FUN2 = function(i) 0
redo <- bplapply(X, FUN2, BPREDO = result, BPPARAM = param)
checkIdentical(names(redo), names(X))
}
test_bplapply_custom_subsetting <- function(){
## We have a class A in the previous unit test
.B <- setClass("B", slots = c(b = "integer"))
setMethod("[", "B", function(x, i, j, ...) initialize(x, b = x@b[i]))
setMethod("length", "B", function(x) length(x@b))
as.list.B <<- function(x, ...) lapply(seq_along(x), function(i) x[i])
x <- .B(b = 1:3)
expected <- lapply(x, function(elt) elt@b)
current <- quiet(bplapply(x, function(elt) elt@b, BPPARAM=SerialParam()))
checkIdentical(expected, current)
## Remote worker does not have the definition of the class B
res <- tryCatch(
bplapply(x, function(elt) elt@b, BPPARAM=SnowParam(workers = 2)),
error = identity
)
checkTrue(is(res, "bplist_error"))
rm(as.list.B, inherits = TRUE)
}
test_bplapply_auto_export <- function(){
p <- SnowParam(2, exportglobals = FALSE)
## user defined symbols
assign("y", 10, envir = .GlobalEnv)
on.exit(rm(y, envir = .GlobalEnv))
fun <- function(x) y
environment(fun) <- .GlobalEnv
bpexportvariables(p) <- TRUE
res <- bplapply(1:2, fun, BPPARAM = p)
checkIdentical(res, rep(list(10), 2))
bpexportvariables(p) <- FALSE
checkException(bplapply(1:2, fun, BPPARAM = p), silent = TRUE)
## symbols defined in a package
fun2 <- function(x) SerialParam()
environment(fun2) <- .GlobalEnv
bpexportvariables(p) <- TRUE
res <- bplapply(1:2, fun2, BPPARAM = p)
checkTrue(is(res[[1]], "SerialParam"))
bpexportvariables(p) <- FALSE
checkException(bplapply(1:2, fun2, BPPARAM = p), silent = TRUE)
}
|
