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context("Start() metadata_dims check")
test_that("1. One data set, one var", {
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repos <- "/esarchive/exp/ecmwf/system5_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
data <- Start(dat = list(list(name = 'system5_m1', path = repos)),
var = 'tas',
sdate = '20170101',
ensemble = indices(1),
time = indices(1),
lat = indices(1:10),
lon = indices(1:10),
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
return_vars = list(time = 'sdate',
longitude = 'dat',
latitude = 'dat'),
metadata_dims = 'dat', # it can be omitted since it is automatically specified as 'dat'
retrieve = T
)
expect_equal(
length(attr(data, 'Variables')),
2
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "system5_m1")
)
expect_equal(
names(attr(data, 'Variables')$common),
c('time', 'tas')
)
expect_equal(
names(attr(data, 'Variables')$system5_m1),
c("longitude", "latitude")
)
expect_equal(
length(attr(data, 'Variables')$common$tas),
12
)
test_that("2. Two data sets, one var", {
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repos <- "/esarchive/exp/ecmwf/system5_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
repos2 <- "/esarchive/exp/ecmwf/system4_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
data <- Start(dat = list(list(name = 'system4_m1', path = repos2),
list(name = 'system5_m1', path = repos)),
var = 'tas',
sdate = '20170101',
ensemble = indices(1),
time = indices(1),
lat = indices(1:10),
lon = indices(1:10),
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
return_vars = list(time = 'sdate',
longitude = 'dat',
latitude = 'dat'),
metadata_dims = 'dat', # it can be omitted since it is automatically specified as 'dat'
retrieve = T
)
expect_equal(
length(attr(data, 'Variables')),
3
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "system4_m1", "system5_m1")
)
expect_equal(
names(attr(data, 'Variables')$common),
'time'
)
expect_equal(
names(attr(data, 'Variables')$system4_m1),
c("longitude", "latitude", "tas")
)
expect_equal(
names(attr(data, 'Variables')$system5_m1),
c("longitude", "latitude", "tas")
)
expect_equal(
length(attr(data, 'Variables')$system5_m1$tas),
12
)
expect_equal(
length(attr(data, 'Variables')$system4_m1$tas),
11
)
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test_that("3. One data set, two vars", {
repos <- paste0('/esarchive/exp/ecearth/a1tr/cmorfiles/CMIP/EC-Earth-Consortium/',
'EC-Earth3/historical/r24i1p1f1/Amon/$var$/gr/v20190312/',
'$var$_Amon_EC-Earth3_historical_r24i1p1f1_gr_185001-185012.nc')
var <- c('tas', 'clt')
sdate <- '20170101'
data <- Start(dat = repos,
var = var,
time = indices(1),
lat = indices(1:10),
lon = indices(10:19),
return_vars = list(lat = NULL, lon = NULL),
metadata_dims = 'var',
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
retrieve = TRUE
)
expect_equal(
length(attr(data, 'Variables')),
2
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "dat1")
)
expect_equal(
names(attr(data, 'Variables')$common),
c('lat', 'lon', 'tas', 'clt')
)
expect_equal(
is.null(attr(data, 'Variables')$dat1),
TRUE
)
expect_equal(
length(attr(data, 'Variables')$common$tas),
17
)
expect_equal(
length(attr(data, 'Variables')$common$clt),
16
)
})
test_that("4. Two data sets, two vars", {
repos <- "/esarchive/exp/ecmwf/system5_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
repos2 <- "/esarchive/exp/ecmwf/system4_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
data <- Start(dat = list(list(name = 'system4_m1', path = repos2),
list(name = 'system5_m1', path = repos)),
var = c('tas', 'sfcWind'),
sdate = '20170101',
ensemble = indices(1),
time = indices(1),
lat = indices(1:10),
lon = indices(1:10),
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
return_vars = list(time = 'sdate',
longitude = 'dat',
latitude = 'dat'),
metadata_dims = 'dat',
retrieve = T
)
expect_equal(
length(attr(data, 'Variables')),
3
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "system4_m1", "system5_m1")
)
expect_equal(
names(attr(data, 'Variables')$common),
'time'
)
expect_equal(
names(attr(data, 'Variables')$system4_m1),
c("longitude", "latitude", "tas")
)
expect_equal(
names(attr(data, 'Variables')$system5_m1),
c("longitude", "latitude", "tas")
)
expect_equal(
length(attr(data, 'Variables')$system5_m1$tas),
12
)
expect_equal(
length(attr(data, 'Variables')$system4_m1$tas),
11
)
data <- Start(dat = list(list(name = 'system4_m1', path = repos2),
list(name = 'system5_m1', path = repos)),
var = c('tas', 'sfcWind'),
sdate = '20170101',
ensemble = indices(1),
time = indices(1),
lat = indices(1:10),
lon = indices(1:10),
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
return_vars = list(time = 'sdate',
longitude = 'dat',
latitude = 'dat'),
metadata_dims = c('dat', 'var'),
retrieve = T
)
expect_equal(
length(attr(data, 'Variables')),
3
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "system4_m1", "system5_m1")
)
expect_equal(
names(attr(data, 'Variables')$common),
'time'
)
expect_equal(
names(attr(data, 'Variables')$system4_m1),
c("longitude", "latitude", "tas", "sfcWind")
)
expect_equal(
names(attr(data, 'Variables')$system5_m1),
c("longitude", "latitude", "tas", "sfcWind")
)
expect_equal(
length(attr(data, 'Variables')$system5_m1$tas),
12
)
expect_equal(
length(attr(data, 'Variables')$system5_m1$sfcWind),
12
)
expect_equal(
length(attr(data, 'Variables')$system4_m1$tas),
11
)
expect_equal(
length(attr(data, 'Variables')$system4_m1$sfcWind),
11
)
})
test_that("5. Specify metadata_dims with another file dimension", {
repos <- "/esarchive/exp/ecmwf/system5_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
repos2 <- "/esarchive/exp/ecmwf/system4_m1/monthly_mean/$var$_f6h/$var$_$sdate$.nc"
data <- Start(dat = list(list(name = 'system4_m1', path = repos2),
list(name = 'system5_m1', path = repos)),
var = c('tas', 'sfcWind'),
sdate = c('20150101', '20160101', '20170101'),
ensemble = indices(1),
time = indices(1),
lat = indices(1:10),
lon = indices(1:10),
synonims = list(lat = c('lat', 'latitude'),
lon = c('lon', 'longitude')),
return_vars = list(time = 'sdate',
longitude = 'dat',
latitude = 'dat'),
metadata_dims = 'sdate',
retrieve = T
)
expect_equal(
length(attr(data, 'Variables')),
3
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "system4_m1", "system5_m1")
)
expect_equal(
names(attr(data, 'Variables')$common),
c('time', 'tas', 'tas', 'tas')
)
expect_equal(
names(attr(data, 'Variables')$system4_m1),
c("longitude", "latitude")
)
expect_equal(
names(attr(data, 'Variables')$system5_m1),
c("longitude", "latitude")
)
expect_equal(
length(attr(data, 'Variables')$common$tas),
12
)
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})
test_that("6. One data set, two vars from one file", {
mask_path <- '/esarchive/autosubmit/con_files/mask.regions.Ec3.0_O1L46.nc'
data <- Start(repos = mask_path,
var = c('nav_lon', 'nav_lat'),
t = 'first',
z = 'first',
x = 'all',
y = 'all',
return_vars = list(var_names = NULL),
var_var = 'var_names',
retrieve = T)
expect_equal(
length(attr(data, 'Variables')),
2
)
expect_equal(
names(attr(data, 'Variables')),
c("common", "dat1")
)
expect_equal(
names(attr(data, 'Variables')$common),
c("var_names", "nav_lon", "nav_lat")
)
expect_equal(
is.null(attr(data, 'Variables')$dat1),
TRUE
)
expect_equal(
length(attr(data, 'Variables')$common$nav_lat),
8
)